Update (Aug 2017)

Please visit HumanBase for updated predictions of tissue-specific networks, gene expression, function and disease. All data updates, new features, and technical support will be made available exclusively at HumanBase.

Integrated Datasets

GIANT tissue networks integrate 987 genome-scale datasets, encompassing ~38,000 conditions from ~14,000 publications and include both expression and interaction measurements.

Dataset NameTitleDescriptionDownload Link
BioGRID Physical and genetic interactions Physical and genetic interactions biogrid.qdab
GDS1012 Idiopathic and scleroderma-associated pulmonary fibrosis derived fibroblasts response to TGFbeta Analysis of adult lung fibroblasts treated with 4 ng/ml TGFbeta cytokine for 4 hours. Fibroblasts obtained from patients with idiopathic or scleroderma-associated pulmonary fibrosis. Results provide insight into the role of TGFbeta in pulmonary fibrosis. GDS1012.qdab
GDS1020 Post-traumatic stress disorder development Expression profiling of peripheral mononuclear blood cells (PMBC) from patients with post-traumatic stress disorder. PMBC samples obtained from patients a few hours and 4 months after exposure to psychological stress. GDS1020.qdab
GDS1021 PBMCs from CCI-779 Treated RCC subjects Clinical Pharmacogenomics study. Renal Cell Carcinoma subjects were treated with CCI-779 and peripheral blood mononuclear cells were profiled over time of treatment. GDS1021.qdab
GDS1022 Lung pneumocyte response to Pseudomonas aeruginosa type III secretion system mutants Analysis of A549 lung pneumocytes after infection with Pseudomonas aeruginosa (PA) PAK mutants deleted for various components of the type III secretion system (TTSS). Mutants in TTSS effectors and translocators studied. PA causes serious respiratory infections in cystic fibrosis patients. GDS1022.qdab
GDS1023 Hematopoietic stem cell engraftment in goat Human-goat chimerism achieved by transplanting human CD34+Lin- cord blood cells into fetal goats. Markers indicate human genes expressed in goat liver and blood. Human/goat hematopoietic stem cell (HSC) xenogeneic model allows analysis of HSC transplantation, expansion and differentiation in vivo. GDS1023.qdab
GDS1028 Severe acute respiratory syndrome expression profile Expression profiling of peripheral blood mononuclear cells (PBMC) from 10 adult patients with severe acute respiratory syndrome (SARS). Results provide insight into the host immune response to the SARS coronavirus. GDS1028.qdab
GDS1036 Microglial cell response to interferon-gamma: time course Expression profiling of microglial cells obtained from 4 different samples following treatment with 200 u/ml interferon-gamma (IFN-gamma). Cells examined 1, 6, and 4 hours after treatment. Results provide insight into the regulation of immune functions in microglia by IFN-gamma. GDS1036.qdab
GDS1048 Lymphoblastoid cell lines from CEPH/Utah families Expression profiling of lymphoblastoid cell lines from 15 CEPH/Utah families. Cell lines from 3 generations examined. Results provide insight into the heritability of gene expression traits in segregating human populations. GDS1048.qdab
GDS1050 Valproic acid effect on theca cells (HG-U133A) Analysis of normal theca cells treated with 500 uM valproic acid (VPA), an anti-epilipetic that induces polycystic ovary syndrome (PCOS)-like symptoms. Theca cells from PCOS patients also examined. Results provide insight into the underlying mechanisms contributing to VPA-induced PCOS-like symptoms. GDS1050.qdab
GDS1051 Valproic acid effect on theca cells (HG-U133B) Analysis of normal theca cells treated with 500 uM valproic acid (VPA), an anti-epilipetic that induces polycystic ovary syndrome (PCOS)-like symptoms. Theca cells from PCOS patients also examined. Results provide insight into the underlying mechanisms contributing to VPA-induced PCOS-like symptoms. GDS1051.qdab
GDS1059 Acute myeloid leukemia response to chemotherapy Analysis of mononuclear cells from 54 chemotherapy treated patients less than 15 years of age with acute myeloid leukemia (AML). Mononuclear cells taken from peripheral blood or bone marrow. Results identify expression patterns associated with complete remission and relapse with resistant disease. GDS1059.qdab
GDS1062 Squamous cell carcinoma of the oral cavity with lymph node metastasis Expression profiling of 18 primary squamous cell carcinomas of the oral cavity with or without lymph node metastasis. Expression in lymph node metastasis also examined. Results used to identify gene expression signature in primary tumors that indicates the presence of lymph node metastasis. GDS1062.qdab
GDS1063 Primary effusion lymphomas and associated viral infections Analysis of Kaposi's sarcoma-associated herpesvirus (KSHV) positive mononuclear cells from 3 patients with primary effusion lymphoma (PEL), 9 KSHV positive PEL cell lines, and 3 KSHV negative cell lines from lymphomatous effusions. Effect of concomittant Epstein-Barr virus infection also examined. GDS1063.qdab
GDS1064 Acute myeloid leukemia subclasses Expression profiling of bone marrow from 43 patients with various forms of acute myeloid leukemia (AML): 10 promyelocytic leukemias with t(15;17), 4 AMLs with inv(16), 7 monocytic leukemias, and 22 nonmonocytic leukemias. Results identify expression signatures unique to each AML subclass. GDS1064.qdab
GDS1065 Mitochondrial encephalomyopathies associated with mitochondrial DNA mutations Analysis of muscle from 12 patients with various forms of mitochondrial encephalomyopathies associated with mitochondrial DNA mutations: 8 patients with a A3243G mutation, and 4 patients with a 4977 base pair deletion. Results identify possible expression signature for mitochondrial disorders. GDS1065.qdab
GDS1067 Plasma cell dyscrasias Expression profiling of plasma cells from patients with plasma cell dyscrasias: 7 with monoclonal gammopathy of undetermined significance, 39 with multiple myeloma (MM), and 6 with plasma cell leukemia. Results provide insight into the neoplastic transformation of plasma cells in MM. GDS1067.qdab
GDS1070 Hypopharyngeal_cancer_transcriptome Gene expression analysis of a unique HNSCC (Head and Neck Squamous Cell Carcinoma) localization, the hypopharynx. Four normal and 34 tumor samples were analysed using Affymetrix HG-U95A microarrays containing probe sets representing ~12650 distinct transcription features. GDS1070.qdab
GDS1074 AML1-ETO fusion protein effect on CD34+ hematopoietic cells Analysis of CD34+ hematopoietic cells expressing the AML1-ETO fusion protein which is formed in acute myeloid leukemia (AML) from translocation t(8;21). CD34+ cells isolated from peripheral blood progenitor and cord blood cells. Results provide insight into the role of AML1-ETO in leukemogenesis. GDS1074.qdab
GDS1078 E2F-1 overexpression effect on melanoma cells Expression profiling of SKMEL-2 melanoma cells overexpressing the transcription factor E2F-1. E2F-1 overexpression induces apoptosis in many tumor cells. Results provide insight into the mechanisms underlying E2F-1 induced apoptosis in melanoma cells. GDS1078.qdab
GDS1085 Normal tissues of diverse types (SHBW) Expression profiling of 115 samples from 35 different types of normal tissues. Samples obtained by surgery or autopsy, and evaluated by pathologists. Results provide insight into the molecular organization of diverse cell types, and provide a baseline for comparison to diseased tissues. GDS1085.qdab
GDS1088 Normal tissues of diverse types (SHDP) Expression profiling of 115 samples from 35 different types of normal tissues. Samples obtained by surgery or autopsy, and evaluated by pathologists. Results provide insight into the molecular organization of diverse cell types, and provide a baseline for comparison to diseased tissues. GDS1088.qdab
GDS1094 Estrogen receptor alpha/beta heterodimer action in response to estrogen and tamoxifen Expression profiling of U2OS osteosarcoma cell line expressing estrogen receptor/alpha heterodimer after treatment with 10 nM 17beta-estradiol (E2) or 10 nM 4-OH tamoxifen (4HT) for 24 hours. Results provide insight into the role of estrogen receptor/alpha heterodimer in gene regulation. GDS1094.qdab
GDS1095 Hematopoeitic stem cells of various types Expression profiling of Lin-CD34-, Lin-CD34+, and Lin+CD34+ peripheral blood hematopoeitic stem cells (HSCs). Results provide insight into the molecular basis of the association of CD34 expression with self-renewal and lineage commitment in HSCs. GDS1095.qdab
GDS1096 Normal tissues of various types Expression profiling of 36 types of normal tissue. Each RNA tissue sample pooled from several donors. Results identify tissue specific genes and provide baselines for interpreting gene expression in cancer. GDS1096.qdab
GDS1112 Glaucomatous astrocytes from the optic nerve head Expression profiling of astrocytes taken from the optic nerve head (ONH) of patients with glaucoma. The ONH is the site of damage in glaucomatous optic neuropathy. Studies suggest that damage in glaucoma is mediated by reactive astrocytes. GDS1112.qdab
GDS1204 Lung cancer cell line response to motexafin gadolinium: time course Expression profiling of lung cancer cell line A549 following treatment with 50 uM of the metal cation-containing chemotherapeutic drug motexafin gadolinium (MGd). Cells examined at 4, 12, and 24 hours following treatment. Results provide insight into the mechanism of action of MGd. GDS1204.qdab
GDS1209 Sarcoma and hypoxia Expression profiling of soft tissue sarcoma samples. Hypoxic regions often develop in tumors as they increase in size. Results provide insight into the expression of hypoxia-related genes in sarcomas. GDS1209.qdab
GDS1210 Gastric cancer Expression profiling of 22 primary advanced gastric cancer tissues. Whole gastric cancer tissues examined in the presence of metastasis and according to histological type. Results provide insight into the progression and diversity of gastric cancer. GDS1210.qdab
GDS1212 Tumor necrosis factor effect in the absence of NF-kappaB activity: time course Temporal analysis of the effect of tumor necrosis factor (TNF) on gene expression in HeLa cells with NF-kappaB inactivated. NF-kappaB inactivated with 2 ug/ml doxycycline. Cells examined at various time points following stimulation with 25 ng/ml TNF. Results identify potential targets of NF-kappaB. GDS1212.qdab
GDS1215 Acute myeloblastic leukemia cells response to all trans retinoic acid and valproic acid Analysis of acute myeloblastic leukemia (AML) cell line, OCI/AML-2, following treatment with valproic acid (VPA) and all trans retinoic acid (ATRA). VPA inhibits histone deacetylase. Results provide insight into the responsiveness of AML cells to ATRA when VPA is present. GDS1215.qdab
GDS1220 Malignant pleural mesothelioma Expression profiling of malignant pleural mesothelioma (MPM) tumors. MPM is a highly lethal malignancy associated with asbestos exposure. Results provide insight into the pathogenesis of MPM. GDS1220.qdab
GDS1221 Chronic myelogenous leukemia response to imatinib Analysis of peripheral blood and bone marrow of chronic myelogenous leukemia (CML) patients prior to imatinib (Gleevec) treatment. Imatinib induces complete cytogenetic response (CCR) in most CML patients. This study attempts to determine transcriptional signature of imatinib non-responders. GDS1221.qdab
GDS1230 Hematopoietic stem cell and progenitor cell comparison (HG-U133A) Comparison of CD34+CD33-CD38-Rho(lo)c-kit+ cells, enriched for hematopoietic stem/progenitor cells (HSC), to CD34+CD33-CD38-Rho(hi) cells, enriched for committed hematopoietic progenitor cells (HPC). Cells obtained from umbilical cord blood and bone marrow. Provides insight into control of HSC fate. GDS1230.qdab
GDS1231 Hematopoietic stem cell and progenitor cell comparison (HG-U133B) Comparison of CD34+CD33-CD38-Rho(lo)c-kit+ cells, enriched for hematopoietic stem/progenitor cells (HSC), to CD34+CD33-CD38-Rho(hi) cells, enriched for committed hematopoietic progenitor cells (HPC). Cells obtained from umbilical cord blood and bone marrow. Provides insight into control of HSC fate. GDS1231.qdab
GDS1235 Pediatric acute lymphoblastic leukemia subtypes Expression profiling of bone marrow from pediatric patients with acute lymphoblastic leukemia (ALL). 10 B-cell ALL, 5 T-cell ALL, and 3 B-cell ALL, with the MLL/AF4 chromosomal rearrangement, patients examined. Results provide insight into the pathogenesis of childhood ALL. GDS1235.qdab
GDS1237 Promyelocytic cell response to Anaplasma phagocytophilum infection Expression profiling of NB4 promyelocytic leukemic cells infected with Anaplasma phagocytophilum, an obligate intracellular bacterium that causes granulocytic anaplasmosis. NB4 is a model for neutrophil maturation. Results provide insight into host cellular pathways affected by A. phagocytophilum. GDS1237.qdab
GDS1249 Toll-like receptor agonists synergistic effect on dendritic cells: time course Temporal analysis of monocyte-derived dendritic cells (DCs) treated with lipopolysaccharide (LPS), an agonist for toll-like receptor (TLR) 4, the synthetic imidazoquinoline resiquimod R848, an agonist for TLR8, or both. Provides insight into the synergistic effect of TLR agonists in activating DCs. GDS1249.qdab
GDS1250 Atypical ductal hyperplasia and breast cancer Comparison of atypical ductal hyperplasia (ADH) tissues from patients with and without a history of breast cancer. Incidence of invasive breast cancer is high in ADH patients. Results identify putative markers of invasive breast cancer. GDS1250.qdab
GDS1252 Idiopathic pulmonary fibrosis Expression profiling of lung tissues from patients with idiopathic pulmonary fibrosis (IPF), a progressive and lethal disorder characterized by the abnormal formation of fibrous scar tissue in the lungs. Results provide insight into the pathogenesis of IPF. GDS1252.qdab
GDS1253 Pituitary adenoma subtypes Expression profiling of 4 pituitary adenoma subtypes. Growth hormone (GH), prolactin (PRL), and adrenocorticotrophin (ACTH) secreting pituitary adenomas, and non-functioning pituitary adenoma examined. 5 specimens pooled and examined for each subtype. Results provide insight into tumor pathogenesis. GDS1253.qdab
GDS1256 IFN-gamma inflammatory effect on bronchial epithelial cells modulated by dexamethasone: time course Analysis of bronchial epithelial cells treated with interferon (IFN) gamma, or dexamethasone (dex), or both. IFN-gamma plays a role in lung inflammatory responses and corticosteroids such as dex are used as treatments for inflammation. Cells examined 8 or 24 hours after treatment. GDS1256.qdab
GDS1257 Sickle cell plasma effect on pulmonary artery endothelial cells (HG-U133A) Expression profiling of pulmonary artery endothelial cells exposed to plasma from sickle cell disease (SCD) patients with sickle acute chest syndrome or from SCD patients at steady state. Results provide insight into the role of extra-erythrocytic factors in sickle cell vasoocclusion. GDS1257.qdab
GDS1258 Sickle cell plasma effect on pulmonary artery endothelial cells (HG-U133B) Expression profiling of pulmonary artery endothelial cells exposed to plasma from sickle cell disease (SCD) patients with sickle acute chest syndrome or from SCD patients at steady state. Results provide insight into the role of extra-erythrocytic factors in sickle cell vasoocclusion. GDS1258.qdab
GDS1263 Dukes B colon cancer recurrence Expression profiling of previously resected frozen primary tumors from patients with Dukes' stage B colon cancer that recurred in 5 years. Results identify potential prognostic markers for tumor relapse. GDS1263.qdab
GDS1269 Cigarette smoking effect on alveolar macrophage Analysis of alveolar macrophages from 15 cigarette smokers, 15 non-smokers and 15 asthmatics. Results suggest that alveolar macrophage activation induced by smoking contributes to emphysema. GDS1269.qdab
GDS1282 Clear cell sarcoma of the kidney Expression profiling of clear cell sarcoma of the kidney (CCSK). Wilms' tumors and fetal kidney control samples also examined. Objective is to reveal diagnostic markers and insight into the pathogenesis of CCSK. GDS1282.qdab
GDS1284 Multiple myeloma molecular classification Analysis of CD138+ plasma cells purified from bone marrow of multiple myeloma (MM) patients. Results used to classify MM cases into translocation/cyclin (TC) groups based on cyclin D expression and presence of translocations in the immunoglobulin heavy chain locus at 14q32. GDS1284.qdab
GDS1286 Esophageal cell response to low pH: time course Analysis of esophageal cell line SKGT4 following exposure to low pH 6.5. Cells examined at various time points up to 2 hours following exposure. Results provide insight into role of gastric acid in pathogenesis of gastro-esophageal reflux disease (GORD) and esophagus adenocarcinoma. GDS1286.qdab
GDS1287 Bone mineral density and circulating monocytes Comparison of circulating monocytes from pre- and postmenopausal females with low or high bone mineral density (BMD). Circulating monocytes are progenitors of osteoclasts, and produce factors important to bone metabolism. Results provide insight into the role of monocytes in osteoporosis. GDS1287.qdab
GDS1288 Mesenchymal precursor cells derived from embryonic stem cells Comparison of mesenchymal stem cells (MSC) and undifferentiated embryonic stem cells (ESC). ESC plated on a monolayer of OP9 stromal cells in the presence of 20% heat inactivated fetal bovine serum in alpha MEM medium to induce differentiation into MSC. GDS1288.qdab
GDS1289 TNFalpha effect on epidermal keratinocytes in the presence of NF-kappa B inhibitor: time course Analysis of epidermal keratinocytes treated with TNFalpha in the presence of 10 uM parthenolide, an NF-kappa B inhibitor. Cells examined at various time points up to 48 hours following TNFalpha treatment. Results identify NF-kappa B-dependent subset of TNFalpha-regulated genes. GDS1289.qdab
GDS1290 CD4+ lymphocyte polarization into Th1 and Th2 cells in the presence of TGFbeta: time course (HG-U95A) Analysis of CD4+ lymphocyte induced to differentiate into Th1 and Th2 by treatment with IL-12 and IL-4 respectively in the presence of TGFbeta. Cells examined at various time points up to 48 hours after treatment. Results provide insight into the mechanisms regulating CD4+ cell polarization. GDS1290.qdab
GDS1295 Lethal congenital contracture syndrome Analysis of spinal cord from fetuses with lethal congenital contracture syndrome (LCCS). LCCS is autosomal recessive, causes death in 32nd gestational week, and involves degeneration of anterior horn motor neurons in spinal cord. Results provide insight into pathways active in motoneuron disease. GDS1295.qdab
GDS12 Bone marrow stromal cell lines Examination of two functionally distinct human bone marrow stromal cell lines, HS-27a and HS-5. Four independent RNA samples from each cell line analyzed. GDS12.qdab
GDS1304 Cigarette smoking effect on small airway epithelium Analysis of phenotypically normal 10th to 12th order small airway bronchial epithelia from cigarette smokers. Cigarette smoking is the most common cause of chronic obstructive pulmonary disease (COPD). Results provide insight into the early pathogenesis of COPD. GDS1304.qdab
GDS1310 Neonatal mononuclear cell response to lipopolysaccharide Analysis of neonatal mononuclear cells from cord blood incubated with 5 ug/ml lipopolysaccharide (LPS). Effect of LPS on adult mononuclear cells from peripheral blood compared. Results provide insight into the molecular basis for increased susceptibility of neonates to sepsis. GDS1310.qdab
GDS1312 Squamous lung cancer Expression profiling of squamous lung cancer biopsy specimens and paired normal specimens from 5 patients. Differentially expressed genes integrated with protein interaction maps. Results suggest that differentially expressed genes are highly connected through protein interactions. GDS1312.qdab
GDS1313 GFAP-negative lamina cribrosa cell response to TGF-beta1 Analysis of glial fibrillary acidic acid (GFAP)-negative lamina cribrosa (LC) glial cell response to 10 ng/ml TGF-beta1 for 24 hours. This is a model for primary open-angle glaucoma (POAG) in which TGF-beta levels are elevated in human LC tissue. GDS1313.qdab
GDS1314 Malignant melanoma cell lines Expression profiling of MelJUSO, A375, 607B, 518A2, and Skmel 28 malignant melanoma cell lines. Results correlated with regions of chromosomal breakpoints, and indicate an association between chromosomal breakpoints and altered gene expression. GDS1314.qdab
GDS1317 Umbilical vein endothelial cell response to shear stress and intraluminal pressure Analysis of endothelial cells (HUVEC) isolated from umbilical veins subjected to high shear stress or high intraluminal pressure. Umbilical veins exposed to each stimuli using a vascular ex vivo perfusion system. Results suggests that response to shear stress differs from response to pressure. GDS1317.qdab
GDS1320 Scott syndrome B lymphoblast response to calcium ionophore Analysis of Scott B lymphoblasts after calcium ionophore A23187 treatment. Lymphoblasts derived from a patient with Scott syndrome, a hemorrhagic disease. Results provide insight into the mechanisms underlying the apoptotic effect of A23187, and susceptibility of Scott B lymphoblasts to apoptosis. GDS1320.qdab
GDS1321 Barrett's metaplasia progression to adenocarcinoma Expression profiling of normal esophageal epithelium, premalignant Barrett's metaplasia, and esophageal adenocarcinoma samples. Tissue samples of each type obtained from 8 patients by transhiatal esophagectomy. Results identify potential markers of disease progression. GDS1321.qdab
GDS1324 T-cell acute lymphoblastic leukemia with CALM-AF10 fusion Analysis of T-cell acute lymphoblastic leukemia (ALL) samples containing t(10;11)(p13;q14-21) translocation that fuses the clathrin-assembly protein-like lymphoid-myeloid leukemia gene CALM to the transcription factor AF10. Results provide insight into the consequences of CALM-AF10 expression. GDS1324.qdab
GDS1325 Telomerase reverse transcriptase overexpression effect on CD4+ lymphocytes Analysis of CD4+ T cells overexpressing green fluorescent protein telomerase reverse transcriptase fusion protein (GFP-hTERT). hTERT encodes catalytic reverse transcriptase subunit of telomerase. Provides insight into long-term consequences of hTERT overexpression in T lymphocytes. GDS1325.qdab
GDS1326 Breast cancer cells reexpressing estrogen receptor alpha response to 17beta-estradiol Analysis of the response of estrogen receptor (ER) negative MDA-MB-231 breast cancer cells infected with full-length ER alpha adenoviral constructs to treatment with 17beta-estradiol (E2). Results provide insight into the anti-proliferative effect of E2 on breast cancer cells reexpressing ER. GDS1326.qdab
GDS1327 Lens epithelial and lens cortical fiber cell comparison Comparison of lens epithelial cells to lens cortical fiber cells. Cells microdissected from lenses of post mortem donors. Results identify genes that may play roles in maintaining the specialized functions of each cell type and provides insight into potential mechanisms of lens cell differentiation. GDS1327.qdab
GDS1329 Molecular apocrine breast tumors Analysis of tumors of 49 breast cancer patients. Tumors classified into luminal and basal classes, and a novel molecular apocrine class. Apocrine tumors are estrogen receptor negative (ER-) and androgen receptor positive (AR+), while luminal tumors are ER+ and AR+, and basal tumors are ER- and AR-. GDS1329.qdab
GDS1330 Crohn disease and ulcerative colitis comparison Expression profiling of mucosal biopsy samples from sigmoid colons of 10 patients with Crohn disease (CD) and 10 patients with ulcerative colitis (UC). CD and UC are two forms of inflammatory bowel disease. Results provide insight into the pathogenesis of CD and UC. GDS1330.qdab
GDS1331 Huntington's disease: peripheral blood expression profile (HG-U133A) Analysis of blood samples of 5 presymptomatic and 12 symptomatic Huntington's disease (HD) patients. Studies suggest that gene expression may be altered in a variety of tissues in HD, including peripheral blood. Results identify potential markers for HD. GDS1331.qdab
GDS1332 Huntington's disease: peripheral blood expression profile (Codelink Uniset 20K) Analysis of blood samples of 5 presymptomatic and 12 symptomatic Huntington's disease (HD) patients. Studies suggest that gene expression may be altered in a variety of tissues in HD, including peripheral blood. Results identify potential markers for HD. GDS1332.qdab
GDS1333 Duchenne Muscular Dystrophy response to oxandrolone (HG-U133A) Analysis of gastrocnemius muscle biopsy specimens from Duchenne muscular dystrophy (DMD) patients before and after 3 months of treatment with 0.1mg/kg/day oxandrolone, a synthetic anabolic steroid. Results provide insight into mechanisms underlying the beneficial effect of oxandrolone in DMD. GDS1333.qdab
GDS1334 Duchenne Muscular Dystrophy response to oxandrolone (HG-U133B) Analysis of gastrocnemius muscle biopsy specimens from Duchenne muscular dystrophy (DMD) patients before and after 3 months of treatment with 0.1mg/kg/day oxandrolone, a synthetic anabolic steroid. Results provide insight into mechanisms underlying the beneficial effect of oxandrolone in DMD. GDS1334.qdab
GDS1340 Exercise effect on aged muscle Expression profiling of vastus lateralis muscles from 6 healthy, elderly, sedentary males after 3 months of exercise at 80% of maximal capacity. Results provide insight into the molecular changes induced by exercise in sedentary skeletal muscles. GDS1340.qdab
GDS1344 Papillary renal cell carcinoma classification Analysis of renal tumors from 34 papillary renal cell carcinoma (PRCC) cases. Results identify 2 molecular signatures that correlate with the morphologic classification of PRCC. Molecular class type 1 tumors correlate with excellent survival, while type 2 tumors correlate with poor survival. GDS1344.qdab
GDS1347 Neurogenic potential of mesenchymal stem cells Comparison of mesenchymal stem cells (MSC) treated with dimethylsulphoxide and butylated hydroxyanisole (DMSO/BHA) for 6 or 48 hours to fetal brain (positive control) or adult liver (negative control). Results raise doubts about the DMSO/BHA protocol for generating neural cells from MSCs. GDS1347.qdab
GDS1348 Cigarette smoke effect on bronchial epithelial cells: time course Analysis of cultured normal bronchial epithelial cells 4 and 24 hours after exposure to 15 minutes of cigarette smoke in order to better understand molecular impact of tobacco exposure. GDS1348.qdab
GDS1353 Glucocorticoid effect on lens epithelial cells: time course Analysis of cultured immortalized lens epithelial cells (LEC) 4 and 16 hours after treatment with 1 uM dexamethasone, a glucocorticoid steroid hormone. Long-term glucocorticoid use can induce cataract formation. Results identify glucocorticoid targets and short-term effects of glucocorticoid on LECs GDS1353.qdab
GDS1362 Ischemic and nonischemic cardiomyopathy comparison Analysis of myocardial tissues from nonischemic (NICM) and ischemic cardiomyopathy (ICM) patients. NICM and ICM, major forms of dilated cardiomyopathy leading to congestive heart failure, have similar presentations but differ in pathophysiology, prognosis, and response to therapy. GDS1362.qdab
GDS1365 IFN-gamma primed macrophage response to IFN-gamma restimulation: time course Analysis of CD14+ monocytes primed with 3 U/ml (subactivating dose) IFN-gamma for 48 hours and restimulated with 100 U/ml (saturating dose) IFN-gamma for various time point up to 24 hours. Results provide insight into the influence of IFN-gamma priming on IFN-gamma induced transcriptional responses. GDS1365.qdab
GDS1369 Autophagy effect on the MHC class II antigenic peptide repertoire Analysis of Awells B-lymphoblastoid cell line after 6 and 24 hours of starvation-induced autophagy. Results identify the influence of autophagy on the MHC-II ligandome, in promoting MHC-II presentation of antigens from intracellular source proteins, and on the MHC-II antigen-processing machinery. GDS1369.qdab
GDS1372 Bone morphogenic protein 2 effect on idiopathic pulmonary arterial hypertension Analysis of pulmonary artery smooth muscle cells (PASMC) from patients with idiopathic pulmonary arterial hypertension (IPAH). PASMC treated with 200 nM bone morphogenic protein 2 (BMP-2) for 24 hours. BMP signaling dysfunction has been implicated in IPAH. GDS1372.qdab
GDS1373 Peroxisome proliferator-activated receptor subtype activation effect on liver cell Analysis of HepG2 cells expressing peroxisome proliferator-activated receptor (PPAR) alpha, beta/delta, gamma 1, or gamma 2. Cells expressing PPARs treated with fenofibric acid, GW501516, or ciglitizone to activate alpha, beta/delta, or gamma subtypes respectively. PPARs regulate lipid homeostasis. GDS1373.qdab
GDS1375 Cutaneous malignant melanoma Expression profiling of primary malignant melanoma, benign skin nevi, and normal skin samples. Results identify potential molecular markers for lymph node staging assays, and provide insight into melanoma tumorigenesis. GDS1375.qdab
GDS1376 Essential thrombocythemia Analysis of platelets from patients with essential thrombocythemia (ET). ET is a myeloproliferative disorder resulting in an abnormal increase in the number of blood platelets. Results indicate that distinct expression patterns of 17beta-hydroxysteroid dehydrogenases are associated with ET. GDS1376.qdab
GDS1380 Glioblastoma pseudopalisading cells Analysis of pseudopalisading cells obtained by laser capture microdissection from glioblastoma tumors. The presence of pseudopalisading cells is associated with aggressive malignant gliomas. Results identify putative prognostic markers for glioblastoma. GDS1380.qdab
GDS1381 Carboplatin sensitive and resistant ovarian carcinoma Comparison of carboplatin sensitive and resistant ovarian cancer cells. Carboplatin is a chemotherapy drug. Cancer cells prepared from primary cultures of ovarian papillary serous adenocarcinomas. Results identify potential markers for carboplatin responsiveness in ovarian carcinoma. GDS1381.qdab
GDS1384 c-Myb and its oncogenic variant v-Myb Analysis of transcriptional activity in MCF7 cells infected with control adenovirus versus adenovirus expressing c-Myb, oncogenic variant v-Myb, or a 3MutC hybrid construct. Results indicate that v-Myb is a distinct transcriptional regulator with a unique set of activities. GDS1384.qdab
GDS1388 B-cell chronic lymphocytic leukemia progression Analysis of primary lymphocytes from B-cell chronic lymphocytic leukemia (B-CLL) patients. Lymphocytes from patients with indolent B-CLL compared to those with progressive B-CLL. Results identify putative gene markers of B-CLL progression from a stable to an aggressive state. GDS1388.qdab
GDS1390 Prostate cancer progression after androgen ablation Analysis of prostate cancer progression following androgen ablation treatment. 10 treated androgen-independent primary prostate tumors compared to 10 untreated androgen-dependent primary prostate tumors. Results provide insight into progression of prostate cancer to aggressive androgen-independent GDS1390.qdab
GDS1392 Myelodysplastic syndrome Analysis of bone marrow CD34+ progenitor cells from normal-karyotype, low-blast-count, early, low-risk myelodysplastic syndrome (MDS) patients, age-matched controls, and patients with non-MDS anemia. Results provide insight into pathogenesis of MDS and identify putative markers of MDS. GDS1392.qdab
GDS1397 T cells infected with an HIV-based vector Analysis of Jurkat T cells infected with an HIV-based vector transducing green fluorescent protein. Expression of genes hosting HIV integration events examined. Results provide insight into how expression from the HIV type 1 promoter is affected by the integration site of the provirus. GDS1397.qdab
GDS1401 CD34+ hematopoietic cells expanded in artificial matrix of fibrillar collagen I Analysis of CD34+ hematopoietic stem/progenitor cells (HSC) expanded for 7 days in an artificial matrix of fibrillar collagen I, the major matrix component of bone. Results provide insight into the limitations of ex vivo expansion to increase the number of transplantable HSCs from cord blood. GDS1401.qdab
GDS1402 Various normal pure cell cultures Expression profiling of various pure normal epithelial, endothelial, fibroblast, stromal, and muscle cell cultures. Data provide baseline for understanding cellular mechanisms for maintenance of stable cell types and for studying pathways to terminally differentiated state. GDS1402.qdab
GDS1405 Pulmonary type II cell differentiation Analysis of epithelial cells isolated from 13 fetal lungs (13-20 wks old) and cultured in dexamethasone/cyclic AMP/isobutylmethylxanthine (DCI) for 72 hrs to promote type II cell differentiation. Mature alveolar type II cells that produce surfactant are critical for adaptation to extrauterine life. GDS1405.qdab
GDS1407 Leukocyte inflammatory responses to lipopolysaccharide Analysis of whole blood following 4 hour treatment with lipolysaccharide (LPS). Leukocytes from individuals with high and low responses to LPS examined. LPS response assessed by measuring cytokine production. Results provide insight into the variability of LPS responses between individuals. GDS1407.qdab
GDS1411 HCaRG overexpression in kidney cells Analysis of HCaRG9, a stably-transfected HEK293 embryonal kidney cell line over-expressing the hypertension-related, calcium-regulated gene (HCaRG). Results identify a role for HCaRG in kidney repair involving increased renal cell migration and transforming growth factor-alpha (TGF-alpha) expression. GDS1411.qdab
GDS1412 Hormone replacement therapy effect on whole blood Comparison of whole blood samples from 42 postmenopausal women on hormone replacement therapy (HRT) to those of 47 postmenopausal women not on HRT. Subjects are part of the Norwegian Women and Cancer Study (NOWAC). GDS1412.qdab
GDS1413 Lipid peroxidation product 4-hydroxy-2-nonenal effect on cells: time course Analysis of RKO colorectal carcinoma cell line at 6 and 24 hours following exposure to subcytotoxic and cytotoxic amounts of 4-hydroxy-2-nonenal (HNE). HNE is an abundant product of polyunsaturated fatty acid oxidation and decomposition and reacts extensively with DNA and proteins. GDS1413.qdab
GDS1414 Candoxin effect on glial cells: time course Analysis of glial cell line Hs683 at various time points up to 48 hours following exposure to 300 nM of candoxin (CDX) snake venom. CDX is a neurotoxin that inhibits post-synaptic neuromuscular and neuronal alpha7nACh-receptors, and delays cell death in glial cells. GDS1414.qdab
GDS1419 Classical Hodgkin's lymphoma: T cell expression profile Expression profiling of CD3+ T cells isolated from peripheral blood samples of untreated patients with classical Hodgkin's lymphoma. CD3+ T cells from healthy donors and patients with sarcoidosis also examined. GDS1419.qdab
GDS1423 Lunasin effect on prostate epithelial cells Expression profiling of normal prostate epithelial RWPE1 cells and tumorigenic prostate cancer RWPE2 cells treated with 2 uM lunasin for 24 hours. Lunasin is a soybean peptide shown to suppress carcinogenesis. Results provide insight into the chemopreventive properties of lunasin. GDS1423.qdab
GDS1424 Folic acid deficiency effect on colon cancer cells Analysis of HT-29 colon cancer cells cultured in pteroylglutamic acid or methyl-tetrahydrofolate at concentrations of 10 or 100 ng/ml each. Studies suggest that folate deficiency can have an inhibitory effect on the progression of established colonic tumor cells. GDS1424.qdab
GDS1436 Cigarette smoking effect on alveolar macrophages Anlaysis of alveolar macrophages of 5 phenotypically normal smokers who consume ~20 packs cigarettes/year. Smoking is the leading cause of respiratory diseases collectively known as chronic obstructive pulmonary disease (COPD). Provides insight into early events in molecular pathogenesis of COPD. GDS1436.qdab
GDS1438 Kidneys removed by laparoscopic donor nephrectomy Analysis of kidneys removed by laparoscopic donor nephrectomy (LDN), a minimally invasive procedure that involves several hours of carbon dioxide pneumoperitoneum. Renal cortices of kidneys recovered by LDN compared to those removed by open donor nephrectomy. GDS1438.qdab
GDS1439 Prostate cancer progression Expression profiling of prostate cancer tumors that are benign, clinically localized, or metastatic and refractory to hormones. Results compared to those obtained from immunoblotting to identify concordant changes in mRNA and protein levels. GDS1439.qdab
GDS1440 Melanoma cell lines treated with a DNA methylase inhibitor Analysis of a poorly tumorigenic melanoma cell line and its 3 highly aggressive derivative lines after treatment with 2'-deoxy-5-azacytidine (DAC), a DNA methyltransferase inhibitor. Results suggest multiple markers for melanoma progression that are regulated by DNA methylation. GDS1440.qdab
GDS1442 PPAR-alpha agonist ciprofibrate effect on liver Analysis of primate livers exposed to ciprofibrate at various doses for 4 or 15 days. Peroxisome proliferator-activated receptor-alpha (PPAR-alpha) agonists such as ciprofibrate cause hepatocarcinogenesis in rodents but not in primates. Results identify species differences in response to PPAR-alpha agonist. GDS1442.qdab
GDS1447 Bronchial epithelial cell response to vanadium and zinc Analysis of bronchial epithelial cells after 4 hours of exposure to 50 uM vanadium (V) or zinc (Zn). Excessive V and Zn in the air can arise from the burning of heavy fuel and during welding and smelting operations, respectively. Results identify biomarkers that distinguish V from Zn exposure. GDS1447.qdab
GDS1449 HIV-1 infection effect on peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells from HIV-1 seropositive and seronegative individuals. Results used to identify a 10-gene signature used for determining HIV-1 serostatus, and a 6-gene signature to identify seropositive individuals exhibiting changes in CD4+ T cell counts. GDS1449.qdab
GDS1453 Camptothecin effect on renal epithelial cell line and HIV transduction Analysis of renal epithelial cell line 293T following treatment with 2 uM camptothecin, which boosts transduction of cells by HIV. Camptothecin induces DNA damage and arrests cell cycle at G2/M. Results provide insight into the mechanisms underlying HIV transduction boost induced by camptothecin. GDS1453.qdab
GDS1454 B_Cell_Chronic_Lymphocytic_Leukemia We used high density oligonucleotide arrays to identify molecular correlates of genetically and clinically distinct subgroups of B-cell chronic lymphocytic leukemia (B-CLL). Gene expression profiling was used to profile the five most frequent genomic aberrations, namely deletions affecting chromosome bands 13q14, 11q22-q23, 17p13 and 6q21, and gains of genomic material affecting chromosome band 12q13. A strikingly high degree of correlation between loss or gain of genomic material and the amount of transcripts from the affected regions leads to the hypothesis of gene dosage as a significant pathogenic factor. Furthermore, the influence of the immunoglobulin variable heavy chain (VH) mutation status was determined. A clear distinction in the expression profiles of unmutated and mutated VH samples exists, which can be discovered using unsupervised learning methods. However, when samples were separated by gender, this separation could only be detected in samples from male patients. GDS1454.qdab
GDS145 Serum stimulation with cycloheximide time course Analysis of the transcriptional program in the response of human fibroblasts to serum. Serum added to fibroblasts in the presence of cycloheximide and samples taken at 0, 0.5, 2 and 4 hours. GDS145.qdab
GDS1476 Uterine fibroids with fumarate hydratase mutations Analysis of 7 uterine fibroids carrying fumarate hydratase (FH) mutations. FH catalyzes hydration of fumarate in the Krebs tricarboxylic acid cycle. Results provide insight into the connection between the disruption of mitochondrial metabolic pathways and neoplasia. GDS1476.qdab
GDS1477 Transcription factor FoxM1 inactivation effect on breast cancer cell Expression profiling of BT-20 breast cancer cells 48 hours after transfection with FoxM1 siRNA. Elevated expression of FoxM1 has been observed in hepatocellular carcinoma, basal cell carcinoma, and breast cancer. Results provide insight into the role of FoxM1 in cancer cell growth. GDS1477.qdab
GDS1478 Intestinal epithelial cell response to probiotic Escherichia coli strain Nissle 1917 Analysis of Caco-2 intestinal epithelial cells cocultured for 6 hours with the probiotic Escherichia coli strain Nissle 1917 (EcN). A controlled clinical trial suggests that EcN is effective in remission maintenance of ulcerative colitis. Results provide insight into EcN-host interactions. GDS1478.qdab
GDS1479 Carcinoma in situ lesions of the urinary bladder Analysis of bladder biopsies of superficial transitional cell carcinomas with or without surrounding carcinoma in situ (CIS) lesions and muscle invasive carcinomas (mTCC). CIS is a common mTCC precursor. Results provide insight into which tumors in early stage bladder cancer are likely to progress. GDS1479.qdab
GDS1480 Obesity: preadipocyte expression profile (HG-U133A) Analysis of cultured abdominal subcutaneous preadipocytes from 7 male and 7 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of preadipocytes in obesity and obesity-related inflammation. GDS1480.qdab
GDS1481 Obesity: preadipocyte expression profile (HG-U133B) Analysis of cultured abdominal subcutaneous preadipocytes from 7 male and 7 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of preadipocytes in obesity and obesity-related inflammation. GDS1481.qdab
GDS1493 Expression profiling in adipocytes of obese humans Microarray analysis comparing gene expression profiles of adipocytes from non-diabetic lean vs non-diabetic obese Pima Indian subjects to identify differentially expressed adipocyte genes with obesity. RNA samples of isolated abdominal subcutaneous adipocytes from 20 lean (10 Males / 10 Females, aged 31±6 year, Body Mass Index 25±3 kg/m2 ) and 19 obese (9M/10F, 29±5y, 55±8 kg/m2 ) subjects were hybridized individually to Affymetrix oligonucleotide arrays HG-U95A, B, C, D, and E. GDS1493.qdab
GDS1495 Obesity: adipocyte expression profile (HG-U95B) Analysis of cultured abdominal subcutaneous mature adipocytes from 9 male and 10 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of adipocytes in obesity and obesity-related inflammation. GDS1495.qdab
GDS1496 Obesity: adipocyte expression profile (HG-U95C) Analysis of cultured abdominal subcutaneous mature adipocytes from 9 male and 10 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of adipocytes in obesity and obesity-related inflammation. GDS1496.qdab
GDS1497 Obesity: adipocyte expression profile (HG-U95D) Analysis of cultured abdominal subcutaneous mature adipocytes from 9 male and 10 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of adipocytes in obesity and obesity-related inflammation. GDS1497.qdab
GDS1498 Obesity: adipocyte expression profile (HG-U95E) Analysis of cultured abdominal subcutaneous mature adipocytes from 9 male and 10 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of adipocytes in obesity and obesity-related inflammation. GDS1498.qdab
GDS1499 Hepatocyte nuclear factor 1beta mutant overexpression effect on embryonic kidney cells Analysis of HEK293 embryonic kidney cells overexpressing wild type hepatocyte nuclear factor (HNF) 1beta or HNF1alpha, or the HNF1beta A263insGG mutant. Results identify gene targets of HNF1 beta, and provide insight into the functional differences between HNF1beta and HNF1alpha. GDS1499.qdab
GDS1503 Hutchinson-Gilford progeria syndrome: fibroblast (HG-U133A) Expression profiling of three fibroblast cell lines derived from Hutchinson-Gilford progeria syndrome (HGPS) patients. Identified changes in gene expression may provide clues to potential risk factors or factors influencing disease progression. GDS1503.qdab
GDS1504 Hutchinson-Gilford progeria syndrome: fibroblast (HG-U133B) Expression profiling of three fibroblast cell lines derived from Hutchinson-Gilford progeria syndrome (HGPS) patients. Identified changes in gene expression may provide clues to potential risk factors or factors influencing disease progression. GDS1504.qdab
GDS1505 Cultured skin substitute Comparison of cultured skin substitute (CSS), cultured keratinocytes, cultured fibroblasts, and native skin. CSS contains fibroblasts and keratinocytes, and can facilitate wound healing. Results provide insight into physiological and molecular differences between CSS and native skin. GDS1505.qdab
GDS1508 Actions of tamoxifen in the uterus and its molecular effectors in endometrial carcinogenesis. The molecular explanation for tamoxifen serving as a breast cancer treatment but displaying partial estrogenic in the uterus is not known. Previously, we reported that differential promoter context and cofactor recruitment contribute to the tissue specificity of tamoxifen. Here, we investigated the genomic basis for the partial oestrogenic activity of tamoxifen in the endometrium. We showed that tamoxifen not only affects the rate of transcription of oestrogen target genes but also targets a unique set of genes. Since oestrogen and tamoxifen are both able to bind to oestrogen receptors (ERs) and because both promote endometrial carcinogenesis, we hypothesized that the molecular effectors for ERs in endometrial carcinogenesis most likely reside in genes that are commonly targeted by oestrogen and tamoxifen. Among those target genes, we identified a paired-box gene PAX2 that is critically involved in cell proliferation and carcinogenesis in the endometrium. Our experiments also demonstrated that PAX2 is activated by oestrogen and tamoxifen in endometrial carcinomas but not in normal endometrium, and this activation is associated with cancer-linked hypomethylation of the PAX2 promoter. GDS1508.qdab
GDS1510 Tamoxifen effect on normal endometrial epithelium Analysis of normal endometrial epithelial cells following treatment with oestrogen or tamoxifen (TMX). Results provide insight into the molecular basis of the association of TMX treatment of breast cancer with an increased incidence of endometrial cancer. GDS1510.qdab
GDS1520 Mast cell activation via the Fc(epsilon)RI Analysis of umbilical cord blood-derived mast cells 2 hours post stimulation by high-affinity IgE receptor (Fc-epsilon-RI). Cells incubated with myeloma IgE and IL-4 prior to stimulation. Cells activated via Fc-epsilon-RI with anti-IgE antibody to induce release of antihistamines and other inflammation mediators. GDS1520.qdab
GDS1523 Ovarian cancer cell lines Analysis of 10 ovarian cancer cell lines: 4 ovarian serous adenocarcinomas, 1 paclitaxel/cisplatin resistant ovarian adenocarcinoma cell line derivative, 5 ovarian clear cell adenocarcinomas. Expression profile of each cell line compared to its sensitivity to paclitaxel and cisplatin. GDS1523.qdab
GDS1530 Fibroblast response to cytomegalovirus infection: time course Analysis of fibroblasts infected with cytomegalovirus (CMV) AD169 strain or a derivative lacking the CMV chemokine receptor US28. Cells examined at 50, 72, and 98 hours post-infection. Results identify pathways affected by CMV and provide insight into the role of US28 in the late phase of infection. GDS1530.qdab
GDS1542 Tumor necrosis factor effect on macrovascular umbilical vein endothelial cells Analysis of macrovascular umbilical vein endothelial cells (HUVEC) stimulated with tumor necrosis factor (TNF)-alpha for 5 hours. TNF is a potent inflammatory stimulus. Results provide insight into the relevance of the diversity of endothelial cell subtypes for the response to inflammatory stimuli. GDS1542.qdab
GDS1543 Tumor necrosis factor effect on microvascular endothelial cells Analysis of microvascular endothelial cells (HMEC) stimulated with tumor necrosis factor (TNF)-alpha for 5 hours. TNF is a potent inflammatory stimulus. Results provide insight into the relevance of the diversity of endothelial cell subtypes for the response to inflammatory stimuli. GDS1543.qdab
GDS1548 Neuroblastoma cell lines Analysis of four cell lines initially established as neuroblastomas. Results indicate that the SK-N-MC cell line expresses all of the Ewing Family Tumor (EFT) signature genes. EFTs are small round blue cell tumors that show features of neuroectodermal differentiation. GDS1548.qdab
GDS1549 Estrogen effect on estrogen receptor alpha positive breast cancer cell lines Expression profiling of estrogen receptor positive breast cancer cell lines treated with estradiol for 24 hours. MCF-7, T47-D, and BT-474 breast cancer cell lines examined. Results identify candidate genes involved in estrogen stimulated breast cancer growth. GDS1549.qdab
GDS1553 Fullerene effect on vascular endothelial cells Analysis of umbilical vein endothelial cells (ECs) treated with hydroxyl fullerene, a major nanomaterial. Nanomaterials are known to translocate into the circulation and may thus directly affect vascular ECs. Results provide insight into the effects of fullerenes on endothelial injury and toxicity. GDS1553.qdab
GDS1557 Atrial and ventricular myocardium comparison (HG-U133B) Analysis of right atria and left ventricles of hearts. While both the ventricle and atrium contract, the atrium is also a source and target for neurohumoral signals. Results provide insight into the molecular basis for the ultrastructural and functional differences between the atrium and ventricle. GDS1557.qdab
GDS1559 Permanent atrial fibrillation (HG-U133B) Analysis of atrium from patients with permanent atrial fibrillation (AF). AF is associated with extensive structural, contractile, and electrophysiological remodeling. Results identify adoption of a ventricular-like genomic signature as a general feature of the fibrillating atrium. GDS1559.qdab
GDS1562 Alveolar rhabdomyosarcoma Analysis of 14 tumor biopsies from children affected by alveolar rhabdomyosarcoma (ARMS). Seven patients were positive for the PAX3-FKHR fusion gene, which indicates an unfavorable prognosis. Results identify expression signatures that differentiate PAX3-FKHR positive from PAX3-FKHR negative ARMS. GDS1562.qdab
GDS1563 Host response to malaria Analysis of whole blood from Kenyan children with acute malaria or other febrile illnesses, both at hospital admission and after recovery. Samples collected during July September 2002. Results provide a perspective of the host response to malaria and further insight into processes of pathogenesis. GDS1563.qdab
GDS1568 Fibroblast response to serum: time course Analysis of fibroblasts at various time points up to 36 hours after serum stimulation. The fibroblast serum response represents a wound healing program; cancer progression is likened to wound healing gone awry. Results provide insight into the significance of the wound healing process in cancer. GDS1568.qdab
GDS156 Muscle function and aging (HG-U95A) Comparison of gene expression in vastus lateralis skeletal muscle biopsies in healthy young (21-31 year old) and older (62-77 year old) men. Sample RNAs isolated from individuals and pooled into groups of 8. GDS156.qdab
GDS1579 Endotoxin effect on leukocytes: time course (U133 2.0) Analysis of leukocytes from 6 healthy subjects intravenously administered bacterial endotoxin. Leukocytes examined at various time points up to 6 hours post-infusion. Results provide insight into the molecular mechanisms involved in the propagation and resolution of the inflammatory response. GDS1579.qdab
GDS157 Type 2 diabetes and insulin resistance (HuGeneFL) Analysis of gene expression in pooled vastus lateralis muscle samples from insulin-sensitive and insulin-resistant equally obese, non-diabetic Pima Indians. A search for susceptibility genes for type 2 diabetes. GDS157.qdab
GDS1580 Lens epithelium-derived growth factor knockdown Expression profiling of 293T cells depleted for lens epithelium-derived growth factor (LEDGF/p75). LEDGF/p75 binds to HIV integrase. Results identify LEDGF/p75 regulated genes, which may be preferential targets of HIV integration. GDS1580.qdab
GDS158 Type 2 diabetes and insulin resistance (Hu35k-A) Analysis of gene expression in pooled vastus lateralis muscle samples from insulin-sensitive and insulin-resistant equally obese, non-diabetic Pima Indians. A search for susceptibility genes for type 2 diabetes. GDS158.qdab
GDS1597 Coronary artery atherosclerosis Analysis of 51 coronary artery segments from the explanted hearts of 22 cardiac patients. Results provide insight into the pathogenesis and progression of atherosclerotic disease. GDS1597.qdab
GDS1604 Ionizing radiation effect on monocytic leukemia cells Analysis of leukemia THP-1 moncytes exposed to ionizing radiation (IR). IR exposure is associated with thrombotic vascular occlusion. Thrombosis in cancer is associated with poor prognosis. Results provide insight into the effect of IR on the expression of tissue factor, an activator of coagulation. GDS1604.qdab
GDS160 Type 2 diabetes and insulin resistance (Hu35k-B) Analysis of gene expression in pooled vastus lateralis muscle samples from insulin-sensitive and insulin-resistant equally obese, non-diabetic Pima Indians. A search for susceptibility genes for type 2 diabetes. GDS160.qdab
GDS1615 Ulcerative colitis and Crohn's disease comparison: peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells (PBMCs) from Crohn's disease (CD) and ulcerative colitis (UC) patients. Results identify a PBMC expression signature that distinguishes between CD and UC, suggesting that diagnosis of these two inflammatory bowel diseases (IBD) using PBMCs is possible. GDS1615.qdab
GDS1617 Motexafin gadolinium and zinc effect on Ramos B-cell lymphoma line Analysis of Ramos B-cell lymphoma cultures following 4 hour treatment with anticancer agent motexafin gadolinium (MGd), zinc acetate (25 or 50 uM), or combinations of MGd and zinc. Results provide insight into the molecular changes that accompany the disruption of intracellular zinc homeostasis. GDS1617.qdab
GDS1618 Lymph node and tonsil comparison Analysis of lymph node (sinuses) and tonsil (no sinuses), highly similar secondary lymphoid organs. Metastatic tumor cells are preferentially arrested in the lymph node sinuses. Results identify signature genes that are prime candidates for mediating adhesion of tumor cells to sinusoidal cells. GDS1618.qdab
GDS161 Type 2 diabetes and insulin resistance (Hu35k-C) Analysis of gene expression in pooled vastus lateralis muscle samples from insulin-sensitive and insulin-resistant equally obese, non-diabetic Pima Indians. A search for susceptibility genes for type 2 diabetes. GDS161.qdab
GDS1627 Breast cancer cell lines response to chemotherapeutic drugs: time course Analysis of 4 breast cell lines treated for up to 36 hrs with the chemotherapeutic agents 5-fluorouracil (5FU), doxorubicin (DOX), or etoposide (ETOP), a drug mechanistically similar to DOX. Expression profiles for DOX- and 5FU-treated cells were used to successfully predict the response to ETOP. GDS1627.qdab
GDS162 Type 2 diabetes and insulin resistance (Hu35k-D) Analysis of gene expression in pooled vastus lateralis muscle samples from insulin-sensitive and insulin-resistant equally obese, non-diabetic Pima Indians. A search for susceptibility genes for type 2 diabetes. GDS162.qdab
GDS1630 Immortalized endothelial cell line response to atorvastatin Analysis of EA.hy926, an immortalized umbilical vein endothelial cell (HUVEC) line, and its primary cell counterpart following treatment with HMG-CoA reductase inhibitor atorvastatin to inhibit the mevalonate pathway. Results suggest EA.hy926 cells have retained endothelial cell-specific features. GDS1630.qdab
GDS1637 Oncogene-induced sensescence in vitro model Analysis of transformed cell lines that either exhibit oncogene-induced senescence (OIS) triggered by MEK activation or bypass OIS. Senescent cells exist in premalignant tumors but not in malignant ones. Results provide insight into the molecular basis of OIS. GDS1637.qdab
GDS1645 Nitric oxide effect on soluble guanylate cyclase deficient cells Analysis of soluble guanylate cyclase-deficient U937 cells exposed to the nitric oxide (NO) donor S-nitrosoglutathione. Cells treated in the presence of dibutyryl-cAMP (Bt2cAMP) to block signaling due to NO-induced decreases in cAMP. Results provide insight into the cGMP-independent effects of NO. GDS1645.qdab
GDS1646 HIV-1 burden effect on mononuclear cell response to co-infection with Neisseria gonorrhoeae Analysis of peripheral blood mononuclear cells infected with various titers of HIV-1 and exposed to a single infectious dose of Neisseria gonorrhoeae (Gc). Results provide insight into the role of viral burden in defining the cellular contribution to host immune response to co-infection with Gc. GDS1646.qdab
GDS1650 Pulmonary adenocarcinoma Analysis of pulmonary adenocarcinomas (AC). Carcinogen exposure is responsible for the majority of ACs. Results compared with those obtained from a urethane-induced lung tumor model in the mouse (GDS1649), and provide insight into the conserved pathways underlying the development of AC. GDS1650.qdab
GDS1663 Expression data from different research centers Comparison of expression data from the Translational Genomics Research Institute to that from the Children's National Medical Center in Washington, DC. Data consists of normal kidney, liver, and spleen expression profiles. GDS1663.qdab
GDS1664 Parathyroid hormone-related protein knockdown effect on breast cancer cells Analysis of MDA-MB-231 breast cancer cells depleted for parathyroid hormone-related protein (PTHrP) using siRNA. PTHrP affects the proliferative and invasive activities of breast cancer cells and regulates their sensitivity to apoptotic stimuli. Results identify PTHrP-regulated tumor-relevant genes. GDS1664.qdab
GDS1665 Papillary thyroid carcinoma Analysis of papillary thyroid carcinoma (PTC) tumors from 9 patients. PTC accounts for about 80% of all thyroid cancers. These results, together with those obtained from custom miRNA chips, indicate the involvement of several miRNAs and the receptor tyrosine kinase KIT in PTC pathogenesis. GDS1665.qdab
GDS1667 Head and neck squamous cell carcinoma tumors harboring human papillomavirus Analysis of 8 head and neck squamous cell carcinoma (HNSCC) tumors positive for human papilloma virus (HPV). 28 HNSCC HPV negative tumors examined. Between 15% and 35% of HNSCCs harbor HPV DNA. Results provide insight into the effect of HPV infection in HNSCC. GDS1667.qdab
GDS1672 Keratinocyte stem cell–enriched hair follicle bulge cells Comparison of outer root sheath (ORS) cells of the hair follicle bulge with other defined ORS cell subpopulations within the follicle. Results provide insight into the biological distinctiveness of hair follicle bulge cells, suggesting the bulge is a repository for keratinocyte stem cells (KSCs). GDS1672.qdab
GDS1673 Non-diseased lung tissue Analysis of non-diseased lungs from 23 multi-organ donors. Upper and lower lobe peripheral sections of the lung were examined. Donors varied in age, sex, smoking history, and ethnicity. Results provide a reference for microarray studies of pulmonary disease. GDS1673.qdab
GDS1676 T cell leukemia cell response to human herpesvirus 6 infection: time course Analysis of an adult T cell leukemia cell line (TaY) following infection with human herpesvirus type 6B strain OK. Cells examined up to 5 days post-infection. Chronically-infected TaY cells were also examined. Results identify candidate genes that regulate the immune response during viral infection. GDS1676.qdab
GDS1679 Exhaustive endurance exercise effect on skeletal muscle: time course Expression profiling of vastus lateralis muscles 3 and 48 hours after a 75-minute bout of high-intensity cycling. Results identify transcriptional pathways activated in skeletal muscles recovering from endurance exercise. GDS1679.qdab
GDS1681 Dendritic cell response to measles virus infection: time course Analysis of dendritic cells (DCs) for up to 24 hours after infection with measles virus (MV). MV induces immunosuppression followed by lasting immunity. DCs appear to play a role in this effect. Results provide insight into MV-DC interactions and suggest mechanisms for MV-modulated immune response. GDS1681.qdab
GDS1684 Cardiac allograft rejection: time course Expression profiling of endomyocardial tissues from 3 subjects before, during, and after a rejection episode. Cardiac allograft rejection is a significant clinical problem in the early phase after heart transplantation and requires frequent surveillance with endomyocardial biopsy. GDS1684.qdab
GDS1685 Hereditary gingival fibromatosis Analysis of gingival tissues from a patient with hereditary gingival fibromatosis (HGF). HGF is a benign disorder characterized by a slow progressive enlargement of the gingiva. This hypertrophic overgrowth of the gingiva may completely cover the teeth. GDS1685.qdab
GDS1688 Various lung cancer cell lines Expression profiling of a set of 29 lung cancer cell lines consisting of 10 non-small cell adenocarcinoma, 10 small cell cancer, and 9 squamous cell cancer lines. Gene expression results analyzed in relation to the sensitivity of each cell line to commonly used anti-cancer agents. GDS1688.qdab
GDS1696 Nanosecond pulsed electric fields effect: time course Expression profiling of Jurkat cells 30min and 60min after exposure to nanosecond pulsed electric fields (nsPEFs) for two consecutive 10 ns pulses at 280kV/cm. Results provide insight into the early response genes to DNA damage caused by electric field radiation. GDS1696.qdab
GDS1697 DNA methyltransferase inhibitor 5-aza-2'-deoxycytidine effect on prostate cancer cell lines Analysis of prostate cancer cell lines after treatment with the DNA methyltransferase inhibitor 5-Aza-2'-deoxycytidine (5-aza-dC). Aberrant DNA methylation is an early event in the development of prostate cancer. Results identify hypermethylated genes whose expression is induced by 5-aza-dC. GDS1697.qdab
GDS1699 Androgen sensitive and insensitive prostate cancer cell lines: expression profiles Analysis of androgen sensitive (AS) and insensitive (AI) prostate cancer cell lines. Despite the wide use of these cell lines as model systems, a global genotypic characterization of these cell lines is currently lacking. Results identify differences in gene expression profiles. GDS1699.qdab
GDS1700 Anemia induced by acute renal rejection: peripheral blood lymphocytes Analysis of peripheral blood lymphocytes from 4 renal allograft recipients with acute rejection and concurrent anemia. Compromised renal function after renal allograft transplantation often results in anemia. Results provide insight into the molecular events underlying anemia in acute rejection. GDS1700.qdab
GDS170 Tumor suppressor protein p53 gene dosage effects Analysis of tumor suppressor protein p53 gene dosage effects in HCT116 colorectal carcinoma-derived cell lines p53 -/-, +/- and +/+ at 0 and 12 hours. Cells with different numbers of functional TP53 alleles can be distinguished by gene expression profile. GDS170.qdab
GDS1710 bHLH transcription factor MyoD knockdown effect on myoblast differentiation Analysis of C2C12 myoblast cell line following RNAi knockdown of the bHLH transcription factor MyoD. RNA prepared from cells after 1, 3, and 6 days of myogenic differentiation in DMEM medium supplemented with 2% horse serum. Results identify targets of MyoD. GDS1710.qdab
GDS1712 2,4-dibencilaminoquinazoline effect on various cancer cell lines Analysis of breast HTB26, colon HT29, and bladder T24 cancer cell lines after treatment with 2,4-dibencilaminoquinazoline, which exhibits cytostatic and apoptotic effects. Gene expression examined after 2,4-dibencilaminoquinazoline induces caspase activation or DNA fragmentation. GDS1712.qdab
GDS1713 Ewing family tumor and neuroblastoma comparison Analysis of Ewing family tumor (EFT) and neuroblastoma (NB) samples. Distinguishing EFTs from other small round blue cell tumors (SRBCTs), such as NBs, by histologic methods is often difficult. Results identify EF-associated genes that enable molecular discrimination between EFTs and other SRBCTs. GDS1713.qdab
GDS1714 Bleomycin effect on mutagen-sensitive lymphoblastoid cell lines Analysis of mutagen-sensitive lymphoblastoid cell lines after exposure to bleomycin. Mutagen-sensitive cells exhibit a high number of bleomycin-induced chromatid breaks. Mutagen sensitivity (MS) reflects an individual's susceptibility to sporadic cancers. Results identify genes involved in MS. GDS1714.qdab
GDS171 HIV viral infection time course Gene expression profile of proliferating normal peripheral blood mononuclear cells (PBMC) infected with HIV type 1 RF. Assessed at 0, 12, 24, 48, and 72 hours postinfection and compared with those of matched uninfected PBMC. GDS171.qdab
GDS1726 HIV encephalitis: brain frontal cortex Analysis of brain frontal cortex of HIV-seropositive patients with HIV encephalitis (HIVE). HIVE affects >40% of AIDS patients, promoting neurodegeneration and cognitive impairment. Results suggest HIV-mediated dysregulation of genes involved in neuronal maintenance might play an important role. GDS1726.qdab
GDS172 SIV disease progression Analysis of SIV MAC 251 disease progression in Rhesus Macaque peripheral blood mononuclear cells (PBMC). Slow, typical and fast progression groups examined at baseline, 3 and 7 weeks post-infection. GDS172.qdab
GDS1730 Autocrine platelet-derived growth factor inhibition effect on malignant gliomas Analysis of U87 glioblastoma (GBM) cell clones overexpressing a dominant-negative form of platelet-derived growth factor (PDGF) A subunit to inactive the PDGF autocrine signaling loop. The autocrine PDGF loop is a hallmark of GBM. Results identify genes regulated by oncogenic PDGF signaling. GDS1730.qdab
GDS1732 Papillary thyroid cancer Expression profiling of 7 papillary thyroid carcinoma (PTC) samples. PTC is the most common type of thyroid cancer, representing up to 80% of all malignant thyroid tumors. Results provide insight into potential molecular markers for PTC. GDS1732.qdab
GDS1733 Heat shock transcription factor HSF1 depleted cells response to heat shock: time course Analysis of HSF1-depleted HeLa cells at various time points up to 24 hours following heat shock treatment at 43 degrees C. Heat shock transcription factor HSF1 silenced using RNA interference (siHSF1_1, siHSF1_2). Results provide insight into the structure and function of the HSF1 signaling network. GDS1733.qdab
GDS1735 Vdelta1 and Vdelta2 gamma delta T cells response to non-TCR agonist stimulation Analysis of Vdelta1 (Vd1) and Vdelta2 (Vd2) gamma delta (gd) T cells following stimulation with a non-TCR mediated agonist, PMA/ionomycin. Vd1 and Vd2 cells differ in tissue tropism, TCR usage, and agonist response. Results provide insight into the functional differences between Vd1 and Vd2 cells. GDS1735.qdab
GDS1736 Arachidonic acid effect on prostate cancer cells Analysis of PC-3 prostate cancer cells incubated with arachidonic acid (AA). AA is an omega-6 fatty acid shown to induce cancer cell proliferation. Results suggest AA plays an important role in stimulation of growth-related genes and proliferation via phosphatidylinositol 3-kinase (PI3K) signaling. GDS1736.qdab
GDS1746 Primary epithelial cell cultures from prostate tumors Analysis of epithelial cell cultures from prostate tumor explants. Results identify an epithelial-restricted transcription profile that can be integrated with tumor grade and clinical information with the aim of discriminating indolent and aggressive prostate tumors that are histologically similar. GDS1746.qdab
GDS1750 Mantle cell lymphoma cell lines (HG-U133A) Expression profiling of 4 mantle cell lymphoma (MCL) cell lines. MCL has the worst prognosis among B-cell lymphomas. Gene expression results combine with genomic profiling results to identify genes that are relevant to MCL pathogenesis and that could also represent possible therapeutic targets. GDS1750.qdab
GDS1753 Colchicine anti-inflammatory effect: time course and dose response Analysis of umbilical vein endothelial cell line HUVEC at various time points up to 24 hours following treatment with 100 ng/ml or 1 ug/ml of colchicine. Colchicine is an alkaloid used to alleviate rheumatic complaints like gout and to prevent acute attacks of familial Mediterranean fever. GDS1753.qdab
GDS1758 Pterygium Expression profiling of primary pterygium tissue. Pterygium, a common ocular surface disorder, is a fibrovascular overgrowth from the conjunctiva onto the cornea. Results provide insight into pterygium pathogenesis. GDS1758.qdab
GDS1760 Telomerase reverse transcriptase immortalizing effect on fibroblasts and endothelial cells: time-course Analysis of normal fibroblasts and endothelial cells, at various population doubling levels (PDLs), following human telomerase reverse transcriptase (hTERT) transfection. hTERT mediates cellular immortalization. Results identify cell-type specific transcriptional responses during immortalization. GDS1760.qdab
GDS1761 NCI60 cancer cell lines Analysis of 60 cell lines (the NCI60) derived from tumors from a variety of tissues and organs. Such cell lines are used extensively as experimental models of neoplastic disease. Results identify variation in gene expression patterns in the cell lines and their relationships to tumors in vivo. GDS1761.qdab
GDS1768 Platelet-derived growth factor effect on fibroblasts: time course Expression profiling of AG01518 foreskin fibroblasts at various time points up to 24 hours following stimulation with 10 ng/ml platelet-derived growth factor (PDGF). PDGF is a potent mitogen for fibroblasts and other cells of mesenchymal origin. Results identify genes regulated by PDGF. GDS1768.qdab
GDS1772 Hypoxia effect on vhl and p53 null mutants Analysis of cell lines lacking VHL or p53 following exposure to hypoxia. VHL is the gene responsible for degrading transcription factor HIF-1. p53 null mutants examined to identify genes whose expression under hypoxia depends on p53. Results identify genes regulated by HIF-1. GDS1772.qdab
GDS1774 Chronic hepatitis C infection response to Agaricus blazei medicinal extract: peripheral blood cells Analysis of peripheral blood cells from chronic hepatitis patients following oral administration of Agaricus blazei Murill (AbM) extract 3 times daily for 1 week. AbM extracts are used as a non-prescription remedy for cancer and infections, including hepatitis. GDS1774.qdab
GDS1777 Colon tubular adenoma and carcinoma cells Analysis of colon tubular adenoma and carcinoma cells microdissected from formalin-fixed paraffin-embedded sections of colon tubular adenomas containing focal adenocarcinomas. Results provide insight into the progression of colon cancers from pre-existing adenomas. GDS1777.qdab
GDS1779 Hypoxia effect on astrocytes Analysis of purified primary astrocytes exposed to hypoxia for 24 hours. Gene expression in HeLa cells also examined. Astrocytes play critical roles in the proper functioning of the brain. Results provide insight into the molecular events underlying the astrocytic responses to hypoxia. GDS1779.qdab
GDS177 Cytomegalovirus strain comparison Human foreskin fibroblasts (HFF) infected with cytomegalovirus strains fhCMV-H (rapid spread in vitro) and fhCMV-T (slow spread in vitro). UV-inactivated viruses also examined to control for response to coat glycoprotein B and active viral infection. GDS177.qdab
GDS1780 Colorectal cancer progression: polysomal mRNA profiles Comparison of polysomal RNA from isogenic cell lines established from a colorectal cancer (CRC) patient. SW480 and SW620 cells derived from the primary tumor and a lymph node metastasis, respectively. The cell lines constitute a cellular model of CRC transition from invasive carcinoma to metastasis. GDS1780.qdab
GDS1783 Vascular smooth muscle response to voltage-dependent and store-operated calcium channel activation Analysis of cerebral vascular smooth muscle cells after activation of voltage-dependent (VDCCs) or store-operated calcium channels (SOCCs). VDCCs activated by K+ depolarization and SOCCs by thapsigargin. Results provide insight into the effect of different calcium signals on gene expression. GDS1783.qdab
GDS1791 Wilms' tumor Expression profiling of Wilms' tumor tissue after pre-operative chemotherapy. Stratagene Universal Reference RNA also examined. Results are part of a cross-platform evaluation and compared to data generated from Serial Analysis of Gene Expression. GDS1791.qdab
GDS1792 Gastric tubular adenoma and carcinoma Analysis of gastric tubular adenoma and carcinoma cells microdissected from formalin-fixed paraffin-embedded sections of gastric biopsies. Early lesions are small and detectable only with a microscope. Results indicate that routinely processed biopsy specimens may be useful in expression profiling. GDS1792.qdab
GDS1806 Modeled microgravity effect on activated T lymphocytes Analysis of activated T-cells subjected to modeled microgravity. The study seeks to identify microgravity sensitive genes involved in apoptosis and the immune response. Microgravity is an environment of little net gravitational force that is experienced in spaceflight and by free-falling objects. GDS1806.qdab
GDS1807 Hypoxia effect on B lymphocyte cell line Expression profiling of B lymphocyte P493-6 cells subjected to hypoxia. Cells incubated in 0.1% oxygen for 29 hours, the point of highest expression of hypoxia-inducible factor 1 (HIF-1). Results identify hypoxia responsive genes in P493-6 cells. GDS1807.qdab
GDS1812 HPV16 integration and episomal loss effect on cervical keratinocytes Analysis of high-risk human papillomavirus (HRHPV) HPV16-containing cervical keratinocyte W12 cells selected for integrated HPV16. Results show that HRHPV integration and episome loss are key events in cervical neoplastic progression. GDS1812.qdab
GDS1813 Glial brain tumors Analysis of 50 glial brain tumors of various histogenesis. Results provide insight into the molecular mechanisms underlying gliomagenesis and define biological pathway maps associated with gliomagenesis as well as distinct glioma subtypes. GDS1813.qdab
GDS1815 High-grade gliomas (HG-U133A) Analysis of high-grade glioma (HGGs) samples from cases of WHO grade III and IV astrocytomas. Results classify HGGs into molecular subclasses with prognostic value that predict survival and disease progression. The molecular subclasses resemble key stages of neurogenesis. GDS1815.qdab
GDS1816 High-grade gliomas (HG-U133B) Analysis of high-grade glioma (HGGs) samples from cases of WHO grade III and IV astrocytomas. Results classify HGGs into molecular subclasses with prognostic value that predict survival and disease progression. The molecular subclasses resemble key stages of neurogenesis. GDS1816.qdab
GDS181 Large-scale analysis of the human transcriptome (HG-U95A) Gene expression profiles from a diverse array of tissues, organs, and cell lines, from the normal physiological state. Represents a preliminary description of the normal mammalian transcriptome. GDS181.qdab
GDS1830 Chemoresistant glioblastomas: expression profile Expression analysis of cell lines derived from primary and recurrent glioblastomas with resistance to O6-alkylating agents, BCNU and TMZ. Chemoresistance to these widely-used drugs is a major obstacle to tumor treatment. Results identify a transcriptomic signature of resistance to alkylating agents. GDS1830.qdab
GDS1835 Various cell lines and Universal Reference RNA (II) Analysis of individual cell lines representing different tissues against a Universal Reference RNA (URR). URR prepared from pooled RNA from the individual cell lines. Results indicate the individual cell lines contribute their own unique set of genes, thereby diversifying gene representation in URR. GDS1835.qdab
GDS1836 Androgen insensitivity syndrome: genital fibroblast response to dihydrotestosterone Analysis of genital fibroblasts from 46,XY females with complete androgen insensitivity syndrome (AIS). Response of cells to dihydrotestosterone examined. Most AIS affected individuals have mutated androgen receptors (AR). Results provide insight into the role of AR in genital differentiation. GDS1836.qdab
GDS1839 Follicular lymphomas and response to rituximab Analysis of lymph node biopsies from 24 follicular lymphoma patients. Biopsies obtained before any systemic therapy. Results analyzed together with the subsequent response of patients to rituximab, a monoclonal antibody directed against the B cell antigen, CD20. GDS1839.qdab
GDS183 Bladder tumor stage classification Identification of clinically relevant subclasses of bladder carcinoma. Three major stages identified, Ta, T1 and T2-4. Ta tumors further classified into subgroups. A 32-gene molecular classifier was built. GDS183.qdab
GDS1841 Chronic endoplasmic reticulum stress imposed by misfolded surfactant protein C (HG-U133A) Analysis of cells that constitutively express misfolded surfactant protein C, which induces chronic endoplasmic reticulum (ER) stress and cytotoxicity. Results provide evidence for an NF-kB-dependent adaptive response to the chronic ER stress imposed by the misfolded protein. GDS1841.qdab
GDS1846 Interferon gamma effect on keratinocytes: time course Analysis of keratinocytes treated with interferon gamma (IFN-gamma) for up to 48 hours. IFN-gamma is a multifunctional, immunomodulatory cytokine with cell type-specific antiviral activities. Results provide insight into molecular processes regulated by IFN-gamma in keratinocytes. GDS1846.qdab
GDS1847 Vitamin D effect on intestinal epithelial cells Analysis of intestinal epithelial Caco-2 cells following treatment with 1,25-dihydroxyvitamin D3 for 24 hours. 1,25-dihydroxyvitamin D3 stimulated calcium absorption in the intestine. Results provide insight into the additional effects of vitamin D on intestinal epithelial cells. GDS1847.qdab
GDS1850 Carious pulpal tissue Expression profiling of core pulpal tissue from carious teeth. RNA pooled from 11 carious teeth. Results provide insight into the molecular events that occur during the progression of dental caries. GDS1850.qdab
GDS1852 siRNA knockdown and transcriptional response to DNA damage Analysis of HEK293 cells following siRNA knockdown of p53, RelA, or ATM, and subsequent treatment with neocarzinostatin, a radiomimetic drug that induces DNA double-strand breaks. Results indicate RNAi combined with expression profiling is a powerful method for dissecting transcriptional networks. GDS1852.qdab
GDS1857 Rheumatoid arthritis: synovial tissues Expression profiling of synovial tissues of patients with rheumatoid arthritis (RA). RA is a chronic inflammatory disease characterized by pain, stiffness, swelling, and destruction of joints. Results provide insight into the pathogenesis of RA. GDS1857.qdab
GDS1858 Various miRNA transfections: time course Analysis of HeLa cells at 12 or 24 hours after transfection with wild type or mutant miR-1 or miR-124. miR-1 is preferentially expressed in heart and skeletal muscle, while miR-124 is preferentially expressed in brain. Results suggest that metazoan miRNAs can reduce the levels of target transcripts. GDS1858.qdab
GDS1869 Heregulin and forskolin mitogenic effect on cultured Schwann cells Analysis of passage 1 and passage 3 Schwann cell cultures obtained from four donors and maintained in the presence of the heregulin and forskolin. Heregulin and forskolin synergistically drive Schwann cell proliferation in vitro. GDS1869.qdab
GDS1873 Antiestrogen and aromatase inhibitor effect on breast cancer cells Analysis of estrogen receptor positive, aromatase transfected MCF-7 cells after treatment with an antiestrogen (AE) or an aromatase inhibitor (AI). AEs and AIs are used to treat estrogen-dependent breast cancer. Cells also treated with androgen which is converted to estrogen by aromatase. GDS1873.qdab
GDS1875 Host cell response to HIV-1 Vpr-induced cell cycle arrest: time course Analysis of cell lines expressing wild-type or mutant HIV-1 Vpr protein at various timepoints following doxycycline induction. Vpr advances HIV pathogenesis by inhibiting the cell cycle at G2/M. Results identify changes in cellular gene expression associated with Vpr-mediated cell cycle arrest. GDS1875.qdab
GDS1886 Moderate hypothermia effect in vitro Analysis of acute monocytic leukemia THP-1 cells exposed to moderate hypothermia (MH) at 32 degrees C for 24 hours. THP-1 cell line is an in vitro system for analyzing the effects of hypothermia. MH has therapeutic applications. Results show substantial changes in gene expression in response to MH. GDS1886.qdab
GDS1887 Rectal cancer cells and radiotherapy response Analysis of rectal cancer cells from patients prior to preoperative radiotherapy. Response to radiotherapy determined by histopathologic examination of resected specimens. Results identify gene markers for the characterization and prediction of the response to radiotherapy in rectal cancer. GDS1887.qdab
GDS1902 Cyanobacterial metabolite apratoxin A cytotoxic effect on colon adenocarcinoma cells: time course and dose response Analysis of colon adenocarcinoma HT29 cells at various time points up to 12 hours following treatment with 2 or 10 nM of the cyanobacterial metabolite apratoxin A. Results provide insight into the molecular mechanisms underlying the cytotoxic effect of apratoxin A on tumor cells. GDS1902.qdab
GDS1912 X-linked recessive dystonia-parkinsonism Expression profiling of the caudate nucleus and nucleus accumbens from the brain of a patient with X-linked recessive dystonia-parkinsonism (XDP). XDP is an adult onset disorder characterized by dystonia and parkinsonism. Result provide insight into the pathogenesis of XDP. GDS1912.qdab
GDS1917 Cerebellar cortex in schizophrenia Analysis of cortical samples corresponding to the crus I/VIIa area of the cerebellum from schizophrenia patients. A study indicates that targets of the RNA-binding ELAV-like protein HuD are overexpressed in the prefrontal cortex of patients with schizophrenia. GDS1917.qdab
GDS1925 Estrogen receptor alpha positive breast cancer cells response to hyperactivation of MAPK pathway Analysis of estrogen receptor (ER) alpha positive MCF-7 breast cancer cells overexpressing constitutively active Raf-1, constitutively active MEK, constitutively active c-erbB-2, or ligand-activatable EGFR. Results indicate that increased MAPK activation results in loss of ER-alpha expression. GDS1925.qdab
GDS1926 Leukotriene D4 and thrombin effect on endothelial cells: time course Temporal analysis of umbilical vein endothelial cells (HUVEC) treated with leukotriene D4 (LTD4) and/or thrombin. LTD4 activates the cysteinyl leukotriene receptor cysLT2-R. Thrombin activates the protease-activated receptor PAR-1. cysLT2-R and PAR-1 may cooperate to augment vascular injury. GDS1926.qdab
GDS1940 Eccentric exercise effect on skeletal muscle: time course Analysis of vastus lateralis muscles of healthy subjects 3 and 48 hrs after a bout of resistance (RES) exercise of 300 single-leg maximal eccentric contractions (EC). EC is the lengthening of a muscle due to an external force while that muscle is contracting. EC commonly results in muscle damage. GDS1940.qdab
GDS1942 Transgenic Krüppel-like factor 4 induction: time course Analysis of RKO colon cancer cell line treated for up to 24 hours with ponasterone A to induce expression of a full-length, transgenic Krüppel-like factor 4 (KLF4). KLF4 is an epithelially-enriched, zinc finger transcription factor. Results provide insight into the biochemical function of KLF4. GDS1942.qdab
GDS1954 Various T7 RNA polymerase-based RNA amplification/labeling methods Comparison of expression profiles generated using various T7 RNA polymerase-based in vitro transcription (IVT) RNA labeling methods. The length of the IVT reactions ranged from 4 to 16 hours. Results provide evidence for amplification method-dependent biases in gene expression data. GDS1954.qdab
GDS1956 Various muscle diseases (HG-U133A) Analysis of muscle biopsy specimens from patients with various muscle diseases. Results provide insight into the diagnosis and pathogenesis of muscle diseases. GDS1956.qdab
GDS1960 Testicular diffuse large B cell lymphoma Analysis of testicular diffuse large B cell lymphoma (DLBCL) tissues with small homozygous HLA-DQ/HLA-DR deletions, larger hemizygous MHC complex deletions, or without deletions. Results provide insight into the significance of the downregulation of HLA class II expression in testicular DLBCL. GDS1960.qdab
GDS1962 Glioma-derived stem cell factor effect on angiogenesis in the brain Analysis of gliomas of different grades. Stem cell factor (SCF) is overexpressed by glioma cells but its role in gliomagenesis has been unclear. Results identify a positive correlation of SCF expression with increasing glioma grade which supports a role for SCF in tumor angiogenesis in the brain. GDS1962.qdab
GDS1965 Melanocyte to melanoma transformation Expression profiling of normal melanocytes, primary melanoma cells, and metastatic melanoma cells. Results provide insight into changes in advanced melanoma relative to normal melanocytes and reveal new targets that can be used in assessing prognosis, staging, and therapy of melanoma patients. GDS1965.qdab
GDS1968 Endothelial cell response to hypoxia and subsequent reoxygenation Expression profiling of umbilical vein endothelial cells (HUVECs) subjected to hypoxia for 1 hour and subsequent reoxygenation for various lengths of time up to 24 hours. GDS1968.qdab
GDS1971 Uncomplicated and complicated malaria: whole blood Expression profiling of pooled whole blood from Gabonese children with uncomplicated or complicated malaria. The children with uncomplicated malaria present mild symptoms, while those with complicated or severe malaria have severe anemia. GDS1971.qdab
GDS1972 RNAlater preservative effect on uterine myometrium: time course Analysis of uterine myometrial tissue specimens stored in RNAlater preservative for 24 or 74 hours at room temperature. Results indicate RNALater did not contribute any systematic shift in quantitative RNA expression results relative to alternative tissue processing methods (fresh, snap-frozen). GDS1972.qdab
GDS1973 Various prostate cell types Analysis of basal, luminal secretory, stromal fibromuscular, and endothelial cells of the prostate. Cell types separated with magnetic cell sorting (MACS) based on cell-type specific cluster designation (CD) antigens. Results identify gene expression signatures at the level of individual cell types. GDS1973.qdab
GDS1974 Keratinocyte response to GLI1 and GLI2 induction: time course Analysis of keratinocyte HaCaT cells at 24 and 72 hours following induction of GLI1 or a constitutively active form of GLI2 from a tetracycline inducible promoter. GLI transcription factors mediate the hedgehog signal in development and carcinogenesis. GDS1974.qdab
GDS1975 Gliomas of grades III and IV (HG-U133A) Analysis of grades III and IV gliomas of various histologic types. Results used to develop a gene-expression based, histology independent-classification scheme, and provide insight into the biology of gliomas. GDS1975.qdab
GDS1976 Gliomas of grades III and IV (HG-U133B) Analysis of grades III and IV gliomas of various histologic types. Results used to develop a gene-expression based, histology independent-classification scheme, and provide insight into the biology of gliomas. GDS1976.qdab
GDS1979 Amyloid precursor protein intracellular domain effect on neural cells Analysis of neural cells induced to express amyloid precursor protein (APP) intracellular domain (AICD) or the combination of AICD and its co-activator Fe65. Secretase processing of APP produces beta-amyloid, the main constituent of Alzheimer plaques, and AICD. Results identify target genes of AICD. GDS1979.qdab
GDS1989 Melanoma progression Analysis of tissue specimens representing benign nevus, atypical nevus, melanoma in situ, vertical growth phase (VGP) melanoma, and metastatic growth phase (MGP) melanoma. Results identify expression signatures that distinguish benign and atypical nevi and melanomas in situ from VGPs and MGPs. GDS1989.qdab
GDS198 Inflammatory myopathy Molecular profiles of muscle tissue in patients with inflammatory myopathies. GDS198.qdab
GDS1993 Colon carcinoma cell line differentiation: transporter and ion channel expression profile Analysis of colon carcinoma Caco-2 cells cultured for various lengths of time up to 3 weeks in flasks or on filters. An array focusing on transporters and ion channels was used. Results provide insight into the influence of cell differentiation on the mRNA expression of transporters and channels. GDS1993.qdab
GDS2007 Fibrosarcoma cell line response to various cytostatic drugs Analysis of fibrosarcoma HT1080 cells following exposure to the cytostatic chemotherapeutic agents actinomycin D or vincristine for 24 hours, or doxorubicin for 6 and 24 hours. Results provide insight into the molecular mechanisms underlying the cell death in response to cytotoxic therapies. GDS2007.qdab
GDS2008 Sustained EGR1 expression in endothelial cells: time course (HG-U133A) Analysis of umbilical vein endothelial cells (HUVEC) at various time points up to 48 hours following transfection with a recombinant adenovirus expressing early growth response-1 (EGR1). EGR1 is implicated in cell growth, apoptosis, and differentiation. Results identify potential EGR1 target genes. GDS2008.qdab
GDS2009 Sustained EGR1 expression in endothelial cells: time course (HG-U133B) Analysis of umbilical vein endothelial cells (HUVEC) at various time points up to 48 hours following transfection with a recombinant adenovirus expressing early growth response-1 (EGR1). EGR1 is implicated in cell growth, apoptosis, and differentiation. Results identify potential EGR1 target genes. GDS2009.qdab
GDS2010 Wilms' tumor 1-associating protein knockdown Analysis of umbilical vein endothelial cells (HUVEC) following siRNA knockdown of Wilms' tumor 1-associating protein, WTAP. WTAP interacts with Wilms' tumor 1 (WT1). The Wilms' tumor suppressor gene WT1 is important in the development of the genitourinary system. GDS2010.qdab
GDS2014 Ulcerative colitis Expression profiling of colonic mucosa from patients with ulcerative colitis, a chronic inflammatory bowel disease of the colon. Colonic mucosa from patients with irritable bowel syndrome used as controls. Biopsies obtained during colonoscopy from region with macroscopically normal appearing mucosa. GDS2014.qdab
GDS2018 Hypoxia-inducible factors-1 and -2 overexpression effect on embryonic kidney cells Analysis of HEK293T embryonic kidney cells subjected to hypoxia or overexpressing hypoxia-inducible factor (HIF)-1, degradation resistant HIF-1, or HIF-2. Results provide insight into the respective roles of HIF-1 and HIF-2 in the cellular response to hypoxia. GDS2018.qdab
GDS201 Interferon induction by small hairpin RNA Embryonic lung fibroblasts (HLF) infected with control lentivirus, or lentivirus expressing MRG15 and MRGX small hairpin RNAs from the H1 polIII promoter. The MRG15 shRNA induces an interferon response that is unrelated to silencing of MRG15. GDS201.qdab
GDS2021 Coronary smooth muscle cell response to beta-1 receptor blockers metoprolol and nebivolol Expression profiling of coronary smooth muscle cells treated with metoprolol or nebivolol. Metoprolol and nebivolol are beta 1-receptor blockers. In a study of 155 patients with hypertension, adverse effects of metoprolol were higher than nebivolol (Uhlir et al. 1991). GDS2021.qdab
GDS2023 Bronchial epithelial cell response to respiratory syncytial virus infection: time course Expression profiling of bronchial epithelial cells at 4 and 24 hours following treatment with respiratory syncytial virus (RSV) at 1.0 MOI. RSV is the most common cause of bronchiolitis and pneumonia among infants. GDS2023.qdab
GDS2034 Prostate cancer cell line LNCaP response to synthetic androgen R1881: time course Expression profiling of prostate cancer cell line LNCaP treated for up to 8 hours with the synthetic androgen R1881. LNCaP cells grow slowly in medium devoid of steroids but resume growth upon the addition of androgens. The study aims to identify direct targets of the androgen receptor. GDS2034.qdab
GDS2035 Vectorless gravity effect on T cell activation Analysis of T cells costimulated with concanavalin A and anti-CD28 antibody in a vectorless gravity environment, which approximates true freefall or microgravity experienced in spaceflight. Results provide insight into the molecular basis of the altered immune function experienced by astronauts. GDS2035.qdab
GDS2036 Macrophage response to hypoxia Expression profiling of cultured macrophages subjected to hypoxia for 24 hours. Macrophages were derived from the mononuclear cells of 4 healthy donors. GDS2036.qdab
GDS2038 Epstein-Barr virus nuclear antigen 2 activation Analysis of Epstein-Barr virus (EBV) negative B-cell lines BL41K3 and BJABK3 following activation of EBV nuclear antigen 2 (EBNA-2). EBNA-2 fused to the hormone-binding domain of the estrogen receptor, and EBNA-2 activated upon estrogen binding. Results identify EBNA-2 target genes. GDS2038.qdab
GDS2039 Endothelial cell morphogenesis (HG-U133A) Analysis of microvascular endothelial cells stimulated to either proliferate or undergo tubulogenesis in vitro. Results provide insight into the molecular mechanisms underlying the regulation of endothelial cell morphogenesis. GDS2039.qdab
GDS2040 Endothelial cell morphogenesis (HG-U133B) Analysis of microvascular endothelial cells stimulated to either proliferate or undergo tubulogenesis in vitro. Results provide insight into the molecular mechanisms underlying the regulation of endothelial cell morphogenesis. GDS2040.qdab
GDS2042 Celiac disease: intraepithelial cytotoxic T lymphocytes Analysis of intraepithelial cytotoxic T lymphocytes (IE-CTLs), aberrantly expressing the cytolytic natural killer (NK) cell lineage receptor NKG2C, from celiac disease patients. Results provide insight into the role of IE-CTLs reprogrammed into NK-like cells in the pathogenesis of celiac disease. GDS2042.qdab
GDS2045 Ductal carcinoma in situ to invasive ductal carcinoma progression (HG-U133A) Analysis of preinvasive ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC) tumors. Pairs of patient-matched DCIS and IDC tumor specimens analyzed. Results provide insight into the mechanisms underlying the progression of DCIS to IDC. GDS2045.qdab
GDS2046 Ductal carcinoma in situ to invasive ductal carcinoma progression (HG-U133 2.0) Analysis of preinvasive ductal carcinoma in situ (DCIS) and invasive ductal carcinoma (IDC) tumors. Pairs of patient-matched DCIS and IDC tumor specimens analyzed. Results provide insight into the mechanisms underlying the progression of DCIS to IDC. GDS2046.qdab
GDS2048 Acute rotavirus infection: peripheral blood mononuclear cells Expression profiling of peripheral blood mononuclear cells (PBMCs) from children with acute rotavirus diarrhea. Rotavirus is the most common cause of severe diarrhea in children. GDS2048.qdab
GDS2049 Glycosylphosphatidylinositol-specific phospholipase D overexpression effect on hepatoma cells: time course Analysis of hepatoma HepG2 cells 6 and 12 hours following transduction with a recombinant adenovirus expressing glycosylphosphatidylinositol-specific phospholipase D (GPI-PLD). Results provide insight into the role of GPI-PLD in hepatic lipid metabolism. GDS2049.qdab
GDS2052 Endometrium throughout the menstrual cycle Analysis of the normal endometrium at distinct phases of the menstrual cycle. Results provide insight into whether molecular profiles of the endometrium can distinguish the different phases of the menstrual cycle. GDS2052.qdab
GDS2054 Chronic endoplasmic reticulum stress imposed by misfolded surfactant protein C (HG-U133B) Analysis of cells that constitutively express misfolded surfactant protein C, which induces chronic endoplasmic reticulum (ER) stress and cytotoxicity. Results provide evidence for an NF-kB-dependent adaptive response to the chronic ER stress imposed by the misfolded protein. GDS2054.qdab
GDS2055 Skeletal muscle types (HG-U133A) Analysis of tibialis anterior, deltoid, quadriceps, and gastrocnemius muscles obtained at autopsy from pediatric and geriatric subjects unaffected by neuromuscular disease. Results provide insight into the molecular basis of the selective involvement of different muscles in muscular dystrophies. GDS2055.qdab
GDS2056 Skeletal muscle types (HG-U133B) Analysis of tibialis anterior, deltoid, quadriceps, and gastrocnemius muscles obtained at autopsy from pediatric and geriatric subjects unaffected by neuromuscular disease. Results provide insight into the molecular basis of the selective involvement of different muscles in muscular dystrophies. GDS2056.qdab
GDS2057 Androgen receptor modulator effect: time course (HG-U133A) Analysis of LNCaP cells treated for 6 and 24 hours with RTI-018, an androgen receptor (AR) ligand with a mechanism of action different from that of canonical agonists. Results provide insight into the link between RTI-018 induced AR conformational changes and its ability to regulate gene expression. GDS2057.qdab
GDS2058 Androgen receptor modulator effect: time course (HG-U133B) Analysis of LNCaP cells treated for 6 and 24 hours with RTI-018, an androgen receptor (AR) ligand with a mechanism of action different from that of canonical agonists. Results provide insight into the link between RTI-018 induced AR conformational changes and its ability to regulate gene expression. GDS2058.qdab
GDS2080 Early and late onset severe preeclampsia: placenta Analysis of placentas from patients with early or late onset severe preeclampsia. Preeclampsia is a serious pregnancy-associated disorder characterized by hypertension and proteinuria. Results provide insight into the pathogenesis of preeclampsia. GDS2080.qdab
GDS2081 Jun kinase inhibition effect on keratinocytes: time course Analysis of keratinocytes at various time points up to 48 hours following treatment with the Jun kinase (JNK) inhibitor SP600125. SP600125 is a reversible ATP-competitive inhibitor specific for the three isoforms of JNK. Results identify JNK-regulated genes in epidermal keratinocytes. GDS2081.qdab
GDS2083 Limb immobilization effect on skeletal muscle Analysis of vastus lateralis muscle after knee immobilization for 48 hours. Limbs immobilized due to injury or illness experience significant muscle atrophy within 1 or 2 weeks. Results provide insight into the mechanisms regulating the rapid protein degradation in immobilized skeletal muscles. GDS2083.qdab
GDS2084 Polycystic ovary syndrome: adipose tissue Analysis of omental adipose tissues of morbidly obese patients with polycystic ovary syndrome (PCOS). PCOS is a common hormonal disorder among women of reproductive age, and is characterized by hyperandrogenism and chronic anovulation. PCOS is associated with obesity. GDS2084.qdab
GDS2086 Transcription factor p63 inactivation effect on squamous cells (HG-U133A) Analysis of squamous cells following siRNA knockdown of the transcription factor p63, a homolog of the tumor suppressor p53. p63 encodes multiple isoforms that activate or repress transcription, and is critical for the development and maintenance of squamous epithelia. GDS2086.qdab
GDS2087 Transcription factor p63 inactivation effect on squamous cells (HG-U133B) Analysis of squamous cells following siRNA knockdown of the transcription factor p63, a homolog of the tumor suppressor p53. p63 encodes multiple isoforms that activate or repress transcription, and is critical for the development and maintenance of squamous epithelia. GDS2087.qdab
GDS2088 Transcription factor p63 inactivation effect on squamous cells (HG-U133 2.0) Analysis of squamous cell lines following siRNA knockdown of the transcription factor p63, a homolog of the tumor suppressor p53. p63 encodes multiple isoforms that activate or repress transcription, and is critical for the development and maintenance of squamous epithelia. GDS2088.qdab
GDS2089 Skeletal muscle response to weight loss Analysis of vastus lateralis muscles of morbidly obese patients before and after gastric bypass surgery. Surgical treatment of severe obesity such as gastric bypass provides the most dramatic reductions in body weight. Results provide insight into the pathogenesis of obesity. GDS2089.qdab
GDS2090 Sphingosine 1-phosphate effect on glioblastoma cells Analysis of glioblastoma cells treated with sphingosine 1-phosphate (S1P). S1P is a lysophospholipid involved in various cellular processes such as migration, proliferation, and survival. Results provide insight into the effect of S1P on glioblastoma angiogenesis and invasion. GDS2090.qdab
GDS2095 Glucocorticoid receptor activation effect on breast cancer cells: time course (series 1) Analysis of breast cancer MCF10A-Myc cells at various time points up to 24 hours following treatment with dexamethasone to activate the glucocorticoid receptor (GR). GR activation is critical in the stress response of virtually all cell types. GDS2095.qdab
GDS2096 Glucocorticoid receptor activation effect on breast cancer cells: time course (series 2) Analysis of breast cancer MCF10A-Myc cells at various time points up to 24 hours following treatment with dexamethasone to activate the glucocorticoid receptor (GR). GR activation is critical in the stress response of virtually all cell types. GDS2096.qdab
GDS2097 Glucocorticoid receptor activation effect on breast cancer cells: time course (series 3) Analysis of breast cancer MCF10A-Myc cells at various time points up to 24 hours following treatment with dexamethasone to activate the glucocorticoid receptor (GR). GR activation is critical in the stress response of virtually all cell types. GDS2097.qdab
GDS2104 Prostaglandin J2 effect on neuroblastoma cell line: time course Analysis of neuroblastoma SK-N-SH cells at various time points up to 24 hours following treatment with prostaglandin J2 (PGJ2), a neurotoxic product of inflammation. Results provide insight into mechanisms of PGJ2-induced accumulation/aggregation of ubiquitinated proteins and to neuronal cell death. GDS2104.qdab
GDS2106 Lymphoblastoid cell lines from various CEPH pedigrees Analysis of lymphoblastoid cell lines of 57 unrelated CEPH individuals from the International HapMap Project. Results used to find association between the expression phenotypes and SNP markers across the genome genotyped on the 57 individuals that belong to various CEPH pedigrees. GDS2106.qdab
GDS2110 Adrenal gland across a 24-hour period Analysis of whole adrenal glands collected at 4-hour intervals across a 24-hour period from adult females acclimated to a 12hr light, 12hr dark photoperiod. Results provide insight into the nature of oscillatory patterns of gene expression in the adrenal gland. GDS2110.qdab
GDS2113 Pheochromocytomas of various genetic origins Analysis of 76 adrenal and extra-adrenal pheochromocytomas. These neural crest-derived tumors of uniform phenotype arise from inherited or sporadic mutations in at least six independent genes. Results provide insight into the molecular pathogenesis of pheochromocytomas. GDS2113.qdab
GDS2118 Myelodysplastic syndromes: CD34+ cells Analysis of CD34+ cells from 55 patients with myelodysplastic syndromes (MDSs). MDSs are a heterogeneous group of hematopoietic malignancies, characterized by blood cytopenias, ineffective hematopoiesis, and a hypercellular bone marrow. Results provide insight into the pathophysiology of MDS. GDS2118.qdab
GDS2125 Methyl-CpG-binding protein 2 binding disruption during neuronal maturation Analysis of SH-SY5Y cells undergoing PMA-induced neuronal maturational differentiation after transfection with a MeCP2 decoy to disrupt binding of MeCP2 to endogenous targets. Results provide insight into the pathogenesis of Rett syndrome, a neurodevelopmental disorder caused by mutations in MeCP2. GDS2125.qdab
GDS2126 Rheumatoid arthritis: synovial tissues Analysis of synovial tissues from patients with rheumatoid arthritis (RA) and osteoarthritis. RA is a chronic, inflammatory joint disease with pronounced inter-patient heterogeneity. Results provide insight into the pathogenesis of RA. GDS2126.qdab
GDS213 Congestive heart failure Analysis of canine tachycardia-induced cardiomyopathy caused by several weeks of rapid ventricular pacing. Left ventricular free wall samples from control dogs and dogs with pacing-induced heart failure compared. GDS213.qdab
GDS2142 Cystic fibrosis patients with mild and severe lung disease: nasal respiratory epithelium (HG-U133A) Analysis of the nasal respiratory epithelium of cystic fibrosis (CF) patients with mild or severe lung disease. CF patients have identical homozygous deltaF508 CFTR genotypes but exhibit variability in pulmonary disease severity. Results provide insight into the basis of the phenotypic difference. GDS2142.qdab
GDS2143 Cystic fibrosis patients with mild and severe lung disease: nasal respiratory epithelium (HG-U133B) Analysis of the nasal respiratory epithelium of cystic fibrosis (CF) patients with mild or severe lung disease. CF patients have identical homozygous deltaF508 CFTR genotypes but exhibit variability in pulmonary disease severity. Results provide insight into the basis of the phenotypic difference. GDS2143.qdab
GDS214 Duchenne muscular dystrophy (MuscleChip) Examination of muscle biopsies from Duchenne muscular dystrophy patients and normal subjects of various age groups. Both mixed groups of patients (5 patient biopsies per group) and individual biopsies analyzed. GDS214.qdab
GDS2153 Dermatomyositis Analysis of skeletal muscle biopsies of 5 patients with dermatomyositis (DM). DM is an idiopathic inflammatory myopathy characterized by muscle weakness and skin lesions. Results provide insight into the pathogenic pathways responsible for muscle fiber damage and dysfunction in myositis. GDS2153.qdab
GDS2154 Inflammatory dilated cardiomyopathy Analysis of parvovirus B19 positive endomyocardial biopsy (EMB) specimens from patients with inflammatory dilated cardiomyopathy (DCMi). Results report on a distinctive cardiac expression pattern in DCMi thereby providing insight into the pathogenesis of this DCM subtype. GDS2154.qdab
GDS215 Juvenile dermatomyositis muscle profile (MuscleChip) Examination of skeletal muscle from juvenile dermatomyositis (JDM) patients, a common pediatric inflammatory myopathy. Muscle biopsies processed singly or in mixed groups of two. Patients genotyped for TNFalpha which is associated with prolonged disease. GDS215.qdab
GDS2164 Simian immune deficiency virus Nef protein expression effect on CD4+ T cells Analysis of Jurkat CD4+ T cells following induction of simian immune deficiency virus (SIV) Nef from an inducible promoter. The Nef protein is expressed early in HIV and SIV infections and plays a crucial role in disease progression. Results identify Nef-mediated changes in T cell gene expression. GDS2164.qdab
GDS2168 HIV viremia effect on monocytes Analysis of CD14+ monocytes from 8 HIV patients at the aviremic state during highly active antiretroviral therapy (HAART) and at the viremic state after the cessation of HAART. Results provide insight into the impact of HIV infection and high-level HIV viremia on the function of monocytes. GDS2168.qdab
GDS2170 Transcription factor IIF cofactor GAS41 overexpression Analysis of SaoS2 cells overexpressing GAS41, a cofactor of the general transcription factor IIF. GAS41 expression from a tet-off vector was suppressed by the addition of doxycycline. Results provide insight into the role of GAS41 in eukaryotic transcription initiation. GDS2170.qdab
GDS2171 Prostate adenocarcinomas of various Gleason patterns Analysis of prostate adenocarcinoma specimens with Gleason patterns 3, 4, or 5. Adenocarcinoma specimens obtained by radical prostatectomy. Results identify molecular alterations underlying prostate cancer grades. GDS2171.qdab
GDS2175 Cockayne syndrome group B protein-null fibroblast rescue (HG-U133A) Analysis of Cockayne syndrome group B (CSB) protein-null fibroblasts rescued by expression of CSB cDNA. CS, a neurodegenerative disorder, arises mostly from CSB defects. Results provide insight into how CSB defects cause CS. GDS2175.qdab
GDS2176 Cockayne syndrome group B protein-null fibroblast rescue (HG-U133B) Analysis of Cockayne syndrome group B (CSB) protein-null fibroblasts rescued by expression of CSB cDNA. CS, a neurodegenerative disorder, arises mostly from CSB defects. Results provide insight into how CSB defects cause CS. GDS2176.qdab
GDS2180 M-CSF and GM-CSF differentiated macrophages response to bacillus Calmette-Guerin (Subset A) Analysis of granulocyte-macrophage colony-stimulating factor (CSF) or macrophage-CSF differentiated macrophages stimulated with bacillus Calmette-Guerin. The two macrophage types differ in their resistance to mycobacterial infection. Results identify host resistance or susceptibility genes. GDS2180.qdab
GDS2182 M-CSF and GM-CSF differentiated macrophages response to bacillus Calmette-Guerin (Subset B) Analysis of granulocyte-macrophage colony-stimulating factor (CSF) or macrophage-CSF differentiated macrophages stimulated with bacillus Calmette-Guerin. The two macrophage types differ in their resistance to mycobacterial infection. Results identify host resistance or susceptibility genes. GDS2182.qdab
GDS2183 M-CSF and GM-CSF differentiated macrophages response to bacillus Calmette-Guerin (Subset C) Analysis of granulocyte-macrophage colony-stimulating factor (CSF) or macrophage-CSF differentiated macrophages stimulated with bacillus Calmette-Guerin. The two macrophage types differ in their resistance to mycobacterial infection. Results identify host resistance or susceptibility genes. GDS2183.qdab
GDS2189 BRCA1/CtIP/ZBRK1 repressor complex depletion effect on mammary epithelial cells Analysis of MCF10A mammary epithelial cells (MECs) in 3D culture following depletion of the BRCA1/CtIP/ZBRK1 repressor complex using BRCA1 or CtIP RNAi. Results provide insight into the molecular mechanisms underlying the accelerated mammary tumor growth correlated with impaired BRCA1 function. GDS2189.qdab
GDS2190 Bipolar disorder: dorsolateral prefrontal cortex Analysis of postmortem dorsolateral prefrontal cortex from 30 adults with bipolar disorder. Results provide insight into the pathophysiology of the disease. GDS2190.qdab
GDS2191 Bipolar disorder: orbitofrontal cortex Analysis of postmortem orbitofrontal cortex from 10 adults with bipolar disorder. Results provide insight into the pathophysiology of the disease. GDS2191.qdab
GDS2193 Sry-related high mobility group box 4 knockdown effect on adenoid cystic carcinoma cells Analysis of adenoid cystic carcinoma (ACC) derived cells (ACC3) following RNAi knockdown of Sry-related high mobility group box 4 (Sox4). Sox4 is one of the most upregulated genes in ACC. Results provide insight into the role of Sox4 in the pathogenesis of ACC. GDS2193.qdab
GDS2200 Non-melanoma skin cancer Analysis of normal skin, actinic keratotic (AK) lesion, and squamous cell carcinoma (SCC) tumor biopsies from 5 patients with non-melanoma skin cancer (NMSC). Results provide insight into the molecular pathogenesis of NMSC. GDS2200.qdab
GDS2201 Serrated and conventional adenocarcinomas Comparison of serrated and conventional colorectal adenocarcinoma tumor samples. Results differentiate serrated from conventional colorectal carcinomas (CRC) and provide insight into the molecular pathogenesis of serrated CRC. GDS2201.qdab
GDS2204 Universal reference RNA in various amounts Analysis of 1, 2, 5 or 10 ug of Stratagene universal human reference RNA as starting material. Results provide insight into the influence of starting RNA quantity on the subsequent gene expression signal measured from a microarray. GDS2204.qdab
GDS2205 Dilated cardiomyopathy: left ventricle Comparison of subendocardial left ventricular tissue samples from 7 patients with dilated cardiomyopathy (DCM) to those from 5 patients with non-failing (NF) hearts. DCM is a common cause of heart failure. Results contribute to the identification of a gene expression signature for DCM. GDS2205.qdab
GDS2206 Dilated cardiomyopathy: septum Comparison of septal myocardial tissue samples from 13 patients with dilated cardiomyopathy (DCM) to those from 15 patients with non-failing (NF) hearts. DCM is a common cause of heart failure. Results contribute to the identification of a gene expression signature for DCM. GDS2206.qdab
GDS2213 Hepatoma cell response to inhibition of DNA methylation and histone deacetylation Analysis of HepG2 hepatoma cells following treatment with 5-aza-2'-deoxycytidine (5-aza-dC) to inhibit DNA methylation, or trichostatin A (TSA) to inhibit histone deacetylation, or both. Results identify epigentically regulated genes in hepatoma cells. GDS2213.qdab
GDS2214 Septic neutrophil response to lipopolysaccharide and high mobility group box 1 protein Analysis of septic neutrophils treated with lipopolysaccharide or high mobility group box 1 (HMGB1) protein. Neutrophils isolated from patients with sepsis-induced acute lung injury (ALI). HMGB1 is a late mediator of endotoxin lethality, and neutrophils play a role in endotoxemia-associated ALI. GDS2214.qdab
GDS2215 Insecticides chlorpyrifos and cyfluthrin effect on primary fetal astrocytes Analysis of primary fetal astrocytes following exposure to the insecticide chlorpyrifos, an organophosphate, or cyfluthrin, a pyrethroid. Results provide insight into the neurotoxicity of cyfluthrin compared to chlorpyrifos and the mechanisms underlying the neurotoxicity of both insecticides. GDS2215.qdab
GDS2216 Lipopolysaccharide antagonist effect on lipopolysaccharide-stimulated dendritic cells: time course Analysis of monocyte-derived dendritic cells treated with cyanobacterial product (CyP) for 1 or 3 hours, or with lipopolysaccharide (LPS) in the presence or absence of CyP for 3 hours. Results provide insight into the extent of the antagonistic activity of CyP on LPS-induced responses. GDS2216.qdab
GDS2221 Galectin-1 maturative effect on monocyte-derived dendritic cells Analysis of monocyte-derived dendritic cells induced to mature with galectin-1, a member of the beta-galactoside-binding lectin family that binds to cell surface glyconjugates. Results provide insight into the role of galectin-1 in the immunobiology of dendritic cells. GDS2221.qdab
GDS222 Microarray technology comparison (3OPHs version 1) Part of a comparison of spotted long oligonucleotide arrays with in situ synthesized 25-mer arrays. Examination of amplified and unamplified K562 erythroleukemia RNA and Stratagene Universal Human Reference RNA. GDS222.qdab
GDS2230 Intestinal absorptive cell model response to iron deficiency and overload Analysis of intestinal CaCo-2 cell line grown in medium free of iron or supplemented with hemin to mimic iron overload. Intestinal iron absorption is crucial for systemic iron homeostasis. Results provide insight into molecular mechanisms regulating iron metabolism. GDS2230.qdab
GDS2234 Skeletal muscle response to endurance exercise training Comparison of vastus lateralis muscles of previously sedentary individuals with improved insulin sensitivity (SI) after 20 weeks of exercise to those with no change in SI. Results provide insight into the mechanisms involved in the improvement in SI induced by regular exercise. GDS2234.qdab
GDS2239 Hepatitis C virus core protein effect on hepatocyte cell line Analysis of HepG2 hepatocytes following induction of hepatitis C virus (HCV) core protein expression. HCV core protein is implicated in the development of hepatocellular carcinoma (HCC). Results provide insight into the molecular processes affected by the HCV core protein. GDS2239.qdab
GDS223 Microarray technology comparison (HG-U95A) Part of a comparison of spotted long oligonucleotide arrays with in situ synthesized 25-mer arrays. Examination of amplified and unamplified K562 erythroleukemia RNA and Stratagene Universal Human Reference RNA. GDS223.qdab
GDS2240 Ileocecal epithelial cell line response to Cryptosporidium parvum infection: time course Analysis of HCT-8 ileocecal epithelial cells at various time points up to 72 hours after infection with Cryptosporidium parvum, an obligate intracellular protozoan that is a major cause of gastrointestinal diseases. Results provide insight into the interaction between the host cell and C. parvum. GDS2240.qdab
GDS2241 Trophoblast cell lines Comparison of BeWo and JEG3 trophoblast cell lines. Trophoblast cell lines are used as surrogates for primary trophoblast cells in the study of placental function. Results provide insight into the differences between the two cell lines. GDS2241.qdab
GDS2242 Acute promyelocytic leukemia Analysis of bone marrow samples from 18 patients with acute promyelocytic leukemia (APL). Fms-like tyrosine kinase 3 (Flt3) is mutated in 35 to 40% of APL cases. Results provide insight into the role of Flt3 mutations in the pathogenesis of APL. GDS2242.qdab
GDS2244 Melanoma cell line response to E2F-1 overexpression and doxorubicin treatment Analysis of E2F-1 overexpressing SK-MEL-2 melanoma cells treated with the anti-cancer drug doxorubicin (dox). Results provide insight into the molecular mechanisms underlying the synergistic effect on melanoma cell apoptosis observed when E2F-1 overexpression is combined with dox treatment GDS2244.qdab
GDS2245 Uterine fibroids with mutated fumarate hydratase (I) Analysis of uterine fibroids with mutations in the fumarate hydratase (FH) gene. FH catalyzes the hydration of fumarate in the TCA cycle. Heterozygous germline mutations in FH cause uterine fibroids and renal cell cancer. Results provide insight into the pathogenesis of TCA cycle-related tumors. GDS2245.qdab
GDS2246 Uterine fibroids with mutated fumarate hydratase (II) Analysis of uterine fibroids with mutations in the fumarate hydratase (FH) gene. FH catalyzes the hydration of fumarate in the TCA cycle. Heterozygous germline mutations in FH cause uterine fibroids and renal cell cancer. Results provide insight into the pathogenesis of TCA cycle-related tumors. GDS2246.qdab
GDS2250 Basal-like breast cancer tumors Analysis of sporadic basal-like cancer (BLC), BRCA-associated breast cancer, and non-BLC tumors. Sporadic BLC are phenotypically similar to BRCA1-associated cancers. Results provide insight into the molecular pathogenesis of BLC and BRCA1-associated breast cancer. GDS2250.qdab
GDS2251 Myeloid leukemia cell lines Comparison of myeloid leukemia cells to normal monocytes. Transcriptional status of each gene compared to its CpG methylation state. The methylation of CpG islands is associated with transcriptional repression and, in cancer, leads to the abnormal silencing of tumor suppressor genes. GDS2251.qdab
GDS2255 Transmigrated neutrophils in the alveolar space of endotoxin-exposed lung Analysis of neutrophils that transmigrate to the alveolar space. Transmigration induced by bronchoscopic instillation of volunteers with endotoxin (LPS). Results identify differences between pulmonary and circulating neutrophils that occur early in endotoxin-induced lung inflammation. GDS2255.qdab
GDS2287 Airway epithelial cell response to Pseudomonas aeruginosa rsmA mutant infection Analysis of airway epithelial cells infected with Pseudomonas aeruginosa PAO1 or the rsmA mutant. RsmA is a small RNA-binding protein that plays a role in the regulation of virulence-related genes in P. aeruginosa. Results provide insight into the influence of RsmA-regulated functions on the host. GDS2287.qdab
GDS2295 Aplidin and cytarabine effect on diffuse large B cell lymphoma cell line Analysis of diffuse large B cell lymphoma SKI-DLCL cells treated with Aplidin, cytarabine (AraC), or both anticancer drugs. The effect of the drugs on animals with SKI-DLCL cell-derived tumors also examined. Results provide insight into the action of Aplidin alone and in combination with AraC. GDS2295.qdab
GDS2297 Gefitinib effect on various non-small cell lung cancer cell lines (HG-U133A) Analysis of baseline non-small cell lung cancer (NSCLC) cell lines with a broad range of sensitivity to the anticancer drug gefitinib. Gefitinib is an epidermal growth factor receptor (EGFR) tyrosine kinase inhibitor (TKI). Results used to define a gene expression signature of gefitinib sensitivity. GDS2297.qdab
GDS2298 Gefitinib effect on various non-small cell lung cancer cell lines (HG-U133B) Analysis of baseline non-small cell lung cancer (NSCLC) cell lines with a broad range of sensitivity to the anticancer drug gefitinib. Gefitinib is an epidermal growth factor receptor (EGFR) tyrosine kinase inhibitor (TKI). Results used to define a gene expression signature of gefitinib sensitivity. GDS2298.qdab
GDS2307 Oxidatively modified LDL effect on retinal pigment epithelial cell line Analysis of retinal pigment epithelial ARPE-19 cells following treatment with LDL or oxidatively modified LDL (ox-LDL) for 48 hours. Results provide insight into the role of ox-LDLs in the development of age-related macular degeneration. GDS2307.qdab
GDS2310 Exercise effect on white blood cells Analysis of white blood cells (WBCs) from 5 males following exhaustive or moderate exercise. Results provide insight into the effects of exercise at the molecular level and the feasibility of using gene expression profiles of WBCs to monitor exercise and training load. GDS2310.qdab
GDS2321 Polyethylene glycol-conjugated G-CSF mobilized CD34+ cells Analysis of granulocyte colony stimulating factor (G-CSF) or polyethylene glycol-conjugated (pegylated) G-CSF mobilized CD34+ hematopoietic stem and progenitor cells from multiple myeloma patients undergoing chemotherapy. Pegylated G-CSF has a longer half-life than unconjugated G-CSF. GDS2321.qdab
GDS2323 Estrogen-starved breast cancer cell line: time course Analysis of breast cancer MCF7/BUS cells starved of estrogen for up to 2 days. Results compared to that from an experiment (GDS2324) examining the response to low concentrations of 17beta-estradiol (E2). Results provide insight into the E2 sensitivity of E2 inducible or suppressible genes. GDS2323.qdab
GDS2324 Low concentrations of 17beta-estradiol effect on breast cancer cell line Analysis of breast cancer MCF7/BUS cells treated with 17beta-estradiol (E2) at concentrations up to 100 pM. Results compared to that from an experiment examining the response to hormone starvation (GDS2323). Results provide insight into the E2 sensitivity of E2 inducible or suppressible genes. GDS2324.qdab
GDS232 Medulloblastoma metastasis Identification of genes causing medulloblastoma tumors to metastasize. Analyzed 23 primary medulloblastomas clinically designated as either metastatic or non-metastatic. GDS232.qdab
GDS2332 Neisseria meningitidis non-adherent mutant infected umbilical vein endothelial cells Analysis of umbilical vein endothelial cells 4 hours following infection with adherent wild type, frpC-deficient mutant, or the non-adherent (delta pilD) mutant form of Neisseria meningitidis. Results provide insight into the role of adherence-mediated signaling in N. meningitidis infections. GDS2332.qdab
GDS2333 Neisseria meningitidis non-adherent mutant infected umbilical vein endothelial cells: time course Analysis of umbilical vein endothelial cells 1 and 6 hours following infection with adherent wild type or the non-adherent (delta pilD) mutant form of Neisseria meningitidis. Results provide insight into the role of adherence-mediated signaling in N. meningitidis infections. GDS2333.qdab
GDS2339 Hepatitis B surface antigen effect on hepatoma cell line Analysis of hepatoma HepG2 cells secreting the hepatitis B surface antigen (HBsAg). Transfected cells examined 4 and 8 days after seeding. Results provide insight into the effect of persistently secreting HBsAg on the host cell. GDS2339.qdab
GDS2341 Type I and Type II interferons effect on lung epithelial cell line: time course Analysis of lung epithelial A549 cells 6 and 24 hours following treatment with type I interferon (IFN), type II IFN, or both. Results provide insight into the molecular basis of the synergistic antiviral and antiproliferative effects observed when type I and type II IFNs are combined. GDS2341.qdab
GDS2342 Chronic phase chronic myelogenous leukemia: CD34+ hematopoietic stem and progenitor cells Analysis of CD34+ hematopoietic stem and progenitor cells from the bone marrow of untreated patients with chronic myelogenous leukemia (CML) in first chronic phase. Results provide insight into the pathogenesis of chronic phase CML. GDS2342.qdab
GDS2352 T cell receptor-independent basal signaling in unstimulated Jurkat T cells Analysis of resting Jurkat T cells and derived mutants lacking T cell receptor (TCR) signaling proteins. Even without TCR engagement, the signaling pathways normally responsive to TCR are not inert. Results provide insight into the transcriptional consequences of the constitutive signaling pathway. GDS2352.qdab
GDS2356 Hair follicles from males and females Analysis of unstaged hair follicles from males and females. Results provide insight into the feasibility of extracting intact RNA, from a small number of hair follicles, in sufficient quantities for expression profiling. GDS2356.qdab
GDS2358 DJ-1 knockdown effect on lung carcinoma cell line Analysis of non-small-cell lung carcinoma H157 cells following DJ-1 siRNA knockdown. DJ-1, a cancer- and Parkinson's disease-associated protein, protects cells from toxic stresses. GDS2358.qdab
GDS2362 Presymptomatic and symptomatic malaria: peripheral blood mononuclear cells Comparison of peripheral blood mononuclear cells of subjects with early, presymptomatic, experimentally acquired malaria to those with acute, uncomplicated, naturally acquired malaria. Results provide insight into the immune response to malaria in these two stages of infection. GDS2362.qdab
GDS2366 Preadipocytes from anatomically separate fat depots (HG-U133A) Analysis of undifferentiated and differentiated preadipocytes from abdominal subcutaneous, mesenteric, and greater omental regions. Separate fat depots differ in size, function, and contribution to pathological states. Results provide insight into the contribution of preadipocytes to this variation. GDS2366.qdab
GDS2367 Tamoxifen effect on breast cancer cell line expressing estrogen receptor alpha and beta Analysis of estrogen receptor alpha (ERalpha)-positive MCF-7 breast cancer (BC) cells infected with adenovirus-ERbeta and treated with tamoxifen (Tam). Tam is a selective ER modulator used in BC prevention and treatment. Results provide insight into Tam activity in the presence of both ERs. GDS2367.qdab
GDS2368 Preadipocytes from anatomically separate fat depots (HG-U133B) Analysis of undifferentiated and differentiated preadipocytes from abdominal subcutaneous, mesenteric, and greater omental regions. Separate fat depots differ in size, function, and contribution to pathological states. Results provide insight into the contribution of preadipocytes to this variation. GDS2368.qdab
GDS2369 Epstein-Barr virus nuclear antigen 2 effect on B-cell lines Analysis of BL41K3 and BJABK3 B-cells following activation of a conditional estrogen-responsive Epstein-Barr virus (EBV) nuclear antigen 2 (EBNA-2) protein. Both B-cell lines are EBV negative. Results identify downstream targets of EBNA-2. GDS2369.qdab
GDS2373 Squamous cell lung carcinomas Analysis of primary squamous cell lung carcinomas (SCCs) from 129 patients. SCCs and adenocarcinomas compose the majority of non small cell lung cancers. Gene expression profiles were compared to clinical outcome. GDS2373.qdab
GDS2374 Glucose-dependent insulinotropic peptide-dependent adrenal hyperplasia Analysis of hyperplastic adrenal glands from patients with glucose-dependent insulinotropic peptide (GIP)-dependent Cushing's Syndrome (CS) or ACTH-dependent CS. Results provide insight into the molecular basis of the ectopic adrenal expression of GIPR in GIP-dependent CS. GDS2374.qdab
GDS2378 UTP and alpha-chemokine CXCL12 effect on CD34+ hematopoietic stem cells Analysis of CD34+ hematopoietic stem cells (HSCs) treated with UTP, alpha-chemokine CXCL12, or both. CXCL12 is a HSC chemoattractant secreted by the bone marrow. Results provide insight into the molecular mechanisms underlying the enhancement of CXCL12-dependent HSC migration by UTP. GDS2378.qdab
GDS2381 Atopic dermatitis (HG-U133A) Analysis of lesional and non-lesional skin biopsy specimens from adult patients with atopic dermatitis (AD). Results provide insight into the molecular changes associated with early AD inflammation. GDS2381.qdab
GDS2382 Atopic dermatitis (HG-U133B) Analysis of lesional and non-lesional skin biopsy specimens from adult patients with atopic dermatitis (AD). Results provide insight into the molecular changes associated with early AD inflammation. GDS2382.qdab
GDS2384 Xenograft model of prostate carcinoma progression Analysis of prostate cancer (PC) xenografts collected from male mice up to 14 days after castration. The androgen receptor (AR) plays a pivotal role in the growth and survival of prostate carcinoma. Results provide insight into the role of selective adaptations of the AR pathway in PC progression. GDS2384.qdab
GDS2395 Epidermal stem cell and transit-amplifying cell (HG-U133A) Analysis of cDNA libraries each generated from a single cultured epidermal stem cell (SC) or transit-amplifying (TA) cell. TA cells are SC progenies that are destined to terminally differentiate. Single cell expression profiling avoids the problem of potentially masking cellular heterogeneity. GDS2395.qdab
GDS2396 Epidermal stem cell and transit-amplifying cell (HG-U133B) Analysis of cDNA libraries each generated from a single cultured epidermal stem cell (SC) or transit-amplifying (TA) cell. TA cells are SC progenies that are destined to terminally differentiate. Single cell expression profiling avoids the problem of potentially masking cellular heterogeneity. GDS2396.qdab
GDS2397 Idiopathic myelofibrosis: hematopoietic CD34+ stem cells Analysis of pooled hematopoietic CD34+ stem cells from peripheral blood of patients with idiopathic myelofibrosis (IM), a rare chronic myeloproliferative disorder. Results provide insight into the molecular pathogenesis of IM. GDS2397.qdab
GDS2414 Decidual stromal cell response to trophoblast conditioned medium: time course Analysis of decidualized endometrial stromal cells at various time points up to 12 hours following treatment with conditioned media from trophoblasts. Results provide insight into the paracrine signaling between the trophoblast and the decidua. GDS2414.qdab
GDS2415 Breast carcinomas and local recurrence Analysis of primary breast carcinoma tumors from 50 patients who received breast-conserving therapy (BCT). 19 patients subsequently developed a local recurrence of the carcinoma. 9 recurrent tumors also examined. Compared to mastectomy, BCT is associated with a higher rate of local recurrence. GDS2415.qdab
GDS2416 Different areas of cervical cancer tumors Analysis of 33 biopsies from 11 cervical cancer patients. Biopsies were obtained from 2 to 5 different areas of each tumor. Results provide insight into the extent of intratumor heterogeneity in gene expression in cervical cancer patients. GDS2416.qdab
GDS2417 Exercise effect on white blood cells Analysis of whole white blood cells (WBC), peripheral blood mononuclear cells, and T lymphocytes following exhaustive exercise. Results provide insight into the improvements in reliability and sensitivity attained using WBC subtypes to monitor physiological states. GDS2417.qdab
GDS2418 Vulvar intraepithelial neoplasia Analysis of vulvar intraepithelial neoplasia (VIN) lesions. VIN is a premalignant disorder caused by human papillomaviruses. Results provide insight into the pathogenesis of VIN. GDS2418.qdab
GDS2419 Multiple sclerosis response to interferon beta-1a therapy: peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells from relapsing-remitting multiple sclerosis (MS) patients 1 day before, 1 day after, and up to 12 months after the initiation of interferon beta-1a (IFN-beta-1a) therapy. Results identify biomarkers for beta-IFN responsiveness. GDS2419.qdab
GDS2422 Fibroblast growth factor 2 restimulation effect on embryonic fibroblast Analysis of embryonic fibroblasts starved of fibroblast growth factor 2 (FGF2) for 2 days and subsequently restimulated with FGF2. FGF2 promotes the self-renewal of embryonic stem cells (ESCs) . Results provide insight into the molecular mechanisms underlying ESC self-renewal in response to FGF2. GDS2422.qdab
GDS2423 Embryonic fibroblast-like differentiated cell Analysis of embryonic fibroblast-like (EF) differentiated cells derived from H9 embryonic stem cells. Foreskin fibroblasts, and undifferentiated H9 and embryonic carcinoma cells also examined. Results provide insight into the differences between EF cells and fibroblasts at the molecular level. GDS2423.qdab
GDS2426 Hypertension-related calcium-regulated gene overexpression effect on kidney cell line Analysis of HEK293 kidney cells overexpressing the hypertension-related calcium-regulated gene (HCaRG). HCaRG is involved in the control of renal cell proliferation and differentiation. Results provide insight into the role of HCaRG in kidney repair after injury. GDS2426.qdab
GDS2428 DNA demethylation effect on glioblastoma cultures Analysis of short-term cultured glioblastoma cells treated with 5-aza-dC to induce DNA demethylation. Glioblastoma cells derived from 3 independent primary glioblastomas. Results provide insight into the role of epigenetic alterations in glioblastoma gene inactivation. GDS2428.qdab
GDS2429 Monocyte differentiation to macrophage and subsequent polarization (HG-U133A) Analysis of monocytes (MCs) treated with M-CSF to induce differentiation into macrophages (MPs), and mature MPs treated with either IFN-gamma and LPS or IL-4 to induce polarization to M1 or M2 cells, respectively. Results provide insight into MC to MP differentiation and polarized activation. GDS2429.qdab
GDS2430 Monocyte differentiation to macrophage and subsequent polarization (HG-U133B) Analysis of monocytes (MCs) treated with M-CSF to induce differentiation into macrophages (MPs), and mature MPs treated with either IFN-gamma and LPS or IL-4 to induce polarization to M1 or M2 cells, respectively. Results provide insight into MC to MP differentiation and polarized activation. GDS2430.qdab
GDS2431 Erythroid differentiation in vitro: time course Analysis of adult differentiating CD34+ hematopoietic progenitor cells at various time points up to 11 days of growth in serum-free medium containing erythropoietin, interleukin-3 and stem cell factor. Results provide insight into the molecular basis of erythropoiesis. GDS2431.qdab
GDS2432 Pituitary adenoma predisposition: whole blood Analysis of whole blood from individuals with pituitary adenoma predisposition. Pituitary adenomas are common benign neoplasms characterized by oversecretion of growth hormone, leading to acromegaly. Results provide insight into the molecular basis of pituitary adenomas. GDS2432.qdab
GDS2435 Total RNA from human venous blood from male and female probands The aim of the project was to explore the feasibility of gene expression profiles as a general diagnostic tool. Therefore the most frequently used and easy to use white blood cells have been profiled. We wanted to examinate, whether phenotypes created by organs different from blood cells have enough influence on these cells to allow the diagnosis of their presence. As a proof of principle we tried to identify surrogate markers for human sex (excluding markers on sex chromosomes). GDS2435.qdab
GDS2444 Dichloroacetate effect on cultured lung carcinoma and glioblastoma cells Analysis of A549 lung carcinoma and M059K glioblastoma cells treated with dichloroacetate (DCA), an inhibitor of the mitochondrial pyruvate dehydrogenase kinase. DCA shifts metabolism from glycolysis to glucose oxidation and decreases mitochondrial membrane potential in cancer cells. GDS2444.qdab
GDS2445 Polycomb group protein depletion effect on embryonic fibroblasts Analysis of embryonic fibroblasts depleted of the polycomb group (PcG) proteins EZH2, EED, SUZ12, or BMI-1. PcG proteins form complexes that regulate the expression of homeotic genes during development. Results provide insight into the mechanisms employed by PcGs to control development. GDS2445.qdab
GDS2446 PTEN deletion mutation effect on colon cancer cells Analysis of HCT116 colon cancer cells in which tumor suppressor gene PTEN had been deleted by gene targeting. Activation of PI3K signaling by PTEN mutations can lead to activation of p53-mediated cell growth suppression. Results provide insight into the role of PTEN in cancer pathogenesis. GDS2446.qdab
GDS2447 Transcriptional profiling of tobacco smokers versus controls Analysis of lymphoblast cell lines derived from six subjects with active nicotine dependence. Depression susceptibility, nicotine dependence, alcohol dependence, and cannabis dependence have correlated genetic and environmental diatheses. Results provide insight into complex behaviour disorders. GDS2447.qdab
GDS2448 Erythropoietin effect on early erythroid progenitor cells Analysis of CD34+ erythroid progenitors stimulated with erythropoietin (Epo) with or without LY294002, a PI3K inhibitor. Epo promotes differentiation and proliferation of early progenitors via activation of PI3K. Results provide insight into molecular mechanisms underlying the effects of Epo. GDS2448.qdab
GDS2452 Histone deacetylase inhibitor effect on endothelial cells Analysis of umbilical vein endothelial cells treated with 500 nM trichostatin A (TSA) for 24 hours. TSA is a histone deacetylase inhibitor. TSA treatment results in decreased endothelial nitric oxide synthase expression. GDS2452.qdab
GDS2453 PPAR-gamma activation and RAR-alpha inhibition effect on dendritic cells Analysis of dendritic cells (DCs) treated with the PPAR-gamma ligand rosiglitazone alone or with the RAR-alpha antagonist AGN193109. DCs treated with the RAR-alpha agonist AM580 also examined. Results provide insight into the contribution of retinoid signaling to the PPAR-gamma response. GDS2453.qdab
GDS2470 Neural tube defect: amniotic fluid Analysis of amniotic fluid samples from pregnant women carrying fetuses with neural tube defects (NTDs) diagnosed during ultrasound examination. Results provide insight into the feasibility of using amniotic fluid samples to characterize polygenic disorders, such as NTD, at the molecular level. GDS2470.qdab
GDS2471 Serum amyloid A effect on endothelial cells: time course Analysis of umbilical vein endothelial (HUVEC) cells stimulated with serum amyloid A (SAA) for up to 48 hours. SAA is an acute phase protein. GDS2471.qdab
GDS2478 Inflammatory acne Analysis of inflammatory papules and normal skin from six patients with acne. Results provide insight into the molecular pathogenesis of acne. GDS2478.qdab
GDS2484 Dermal lymphatic endothelial cell response to tumor necrosis factor alpha Analysis of dermal lymphatic endothelial cells treated with tumor necrosis factor alpha to define inflammation-induced changes. Results provide insight into the mechanisms regulating the transmigration of leukocytes from inflamed skin across the lymphatic vessel endothelium into lymph nodes. GDS2484.qdab
GDS2486 Small airway epithelium response to cigarette smoking Analysis of small airway epithelial cells of phenotypically normal smokers. The earliest morphologic evidence of changes in the airways associated with chronic cigarette smoking is in the small airways. Results provide insight into how smoking modifies small airway structure and function. GDS2486.qdab
GDS2489 Large airway epithelium response to cigarette smoking (HuGeneFL) Analysis of large airway epithelial cells of phenotypically normal smokers. Lung cancer tumors exhibit neuroendocrine properties, and chronic smokers have increased numbers of neuroendocrine cells. Results provide insight into the effect of cigarette smoking on neuroendocrine cells. GDS2489.qdab
GDS2490 Large airway epithelium response to cigarette smoking (HG-133A) Analysis of large airway epithelial cells of phenotypically normal smokers. Lung cancer tumors exhibit neuroendocrine properties, and chronic smokers have increased numbers of neuroendocrine cells. Results provide insight into the effect of cigarette smoking on neuroendocrine cells. GDS2490.qdab
GDS2491 Large airway epithelium response to cigarette smoking (HG-U133 2.0) Analysis of large airway epithelial cells of phenotypically normal smokers. Lung cancer tumors exhibit neuroendocrine properties, and chronic smokers have increased numbers of neuroendocrine cells. Results provide insight into the effect of cigarette smoking on neuroendocrine cells. GDS2491.qdab
GDS2493 Glucocorticoid sensitive and resistant acute lymphoblastic leukemia samples Analysis of pretreatment acute lymphoblastic leukemia samples that are either sensitive or resistant to glucocorticoid (GC)-induced apoptosis in vitro. Results used to search a database of expression profiles of pharmacologic treatment of cells for small molecules that reverse the resistance to GCs. GDS2493.qdab
GDS2494 Rapamycin effect on a glucorticoid-resistant T cell lymphoblastic leukemia cell line: time course Analysis of the glucocorticoid (GC) resistant T cell lymphoblastic leukemia cell line CEM-c1 following treatment with rapamycin for 3 or 24 hours. Results compared to a GC sensitivity expression signature. Results provide insight into the feasibility of using rapamycin to reverse GC resistance. GDS2494.qdab
GDS2495 Airway epithelium response to injury: time course Analysis of airway epithelia from healthy individuals 7 and 14 days following injury by epithelial denudation. Results provide insight into the molecular mechanisms underlying airway epithelial repair. GDS2495.qdab
GDS2499 Anti-cancer agent sapphyrin PCI-2050 effect on lung cancer cell line: dose response Analysis of A549 lung cancer cells following treatment with anti-cancer agent sapphyrin PCI-2050 or transcription inhibitor actinomycin D. Hydrophilic sapphyrins localize to tumors, generate oxidative stress, and inhibit gene expression. GDS2499.qdab
GDS2501 B-cell chronic lymphocytic leukemia cell type and prognosis Analysis of B-cell chronic lymphocytic leukemia (B-CLL) cells that express or do not express zeta-associated protein (ZAP-70) and CD38. The prognosis of patients with ZAP-70-CD38- B-CLL cells is good, those with ZAP-70+CD38+ B-CLL cells is poor. GDS2501.qdab
GDS2513 Nicotinamide effect on thrombopoietin-induced megakaryocyte differentiation in vitro Analysis of thrombopoietin-cultured CD34+ cells at various time points up to 5 days following treatment with nicotinamide. Thrombopoietin induces CD34+ cells to differentiate into megakaryocytes. Results provide insight into the effect of nicotinamide on megakaryocyte differentiation. GDS2513.qdab
GDS2516 Interferons effect on endothelial cells Analysis of endothelial cells treated with interferon (IFN) alpha, beta, or gamma for 5 hours. The effect of IFNs on fibroblasts was also examined. Results provide insight into the molecular basis of the antiangiogenic activity exhibited by IFNs. GDS2516.qdab
GDS2518 Psoriatic plaques Analysis of uninvolved and lesional skin of 13 patients with plaque-type psoriasis. Psoriasis vulgaris is characterized by hyperproliferation and incomplete terminal differentiation of epidermal keratinocytes. Results provide insight into the molecular pathogenesis of psoriasis. GDS2518.qdab
GDS2519 Early-stage Parkinson’s disease: whole blood Analysis of blood of 50 patients predominantly with early-stage Parkinson’s disease (PD). Results provide insight into the molecular processes perturbed in the cellular blood of patients with early-stage PD. GDS2519.qdab
GDS2520 Head and neck squamous cell carcinoma Analysis of paired normal tissues and tumor samples from patients with head and neck squamous cell carcinoma (HNSCC). Results used to assess the effectiveness of using a combinatorial approach to analyze microarray data in identifying differentially expressed genes. GDS2520.qdab
GDS2528 Basal plate of the placenta from midgestation to term (HG-U133A) Analysis of the basal plate of the placenta from midgestation to term. The basal plate is the region where maternal and fetal cells coexist. Its proper formation is required for pregnancy. Results provide insight into the molecular basis of the unique cell-cell interactions in the basal plate. GDS2528.qdab
GDS2529 Basal plate of the placenta from midgestation to term (HG-U133B) Analysis of the basal plate of the placenta from midgestation to term. The basal plate is the region where maternal and fetal cells coexist. Its proper formation is required for pregnancy. Results provide insight into the molecular basis of the unique cell-cell interactions in the basal plate. GDS2529.qdab
GDS2530 Retinoblastomas with loss of heterozygosity at chromosome 16q Analysis of 4 retinoblastomas with loss of heterozygosity (LOH) at chromosome 16q. In addition to RB1 gene mutations, retinoblastomas frequently show gains of 1q and 6p and losses of 16q. Results identify candidate tumor suppressors on 16q in retinoblastoma. GDS2530.qdab
GDS2534 p63 depletion effect Analysis of ME180 cervical carcinoma cells depleted for p63 isoforms by expression of a small hairpin RNA targeting the p63 oligomerization domain. p63 is a p53 homolog essential for stratified epithelial development. Results provide insight into the function of p63 in transcriptional regulation. GDS2534.qdab
GDS2535 Vanadium pentoxide effect on lung fibroblasts: time course Analysis of lung fibroblasts for up to 24 hours following exposure to vanadium pentoxide (V2O5). Exposure to V2O5 is a cause of occupational bronchitis. Results provide insight into the molecular mechanisms that contribute to airway remodeling associated with V2O5-induced bronchitis. GDS2535.qdab
GDS2536 Nickel effect on endothelial cells Analysis of human umbilical vein endothelial cells treated with nickel chloride. Nickel compounds, important carcinogens and inducers of contact allergy reactions, are activators of endothelial cells. Results provide insight into the signaling pathways mediating the cellular responses to nickel. GDS2536.qdab
GDS2545 Metastatic prostate cancer (HG-U95A) Analysis of metastatic prostate tumors and primary prostate tumors. Normal tissue adjacent to the tumor and normal donor tissue also examined. Metastasis reflects the most adverse clinical outcome. Results provide insight into the molecular mechanisms underlying the metastatic process. GDS2545.qdab
GDS2546 Metastatic prostate cancer (HG-U95B) Analysis of metastatic prostate tumors and primary prostate tumors. Normal tissue adjacent to the tumor and normal donor tissue also examined. Metastasis reflects the most adverse clinical outcome. Results provide insight into the molecular mechanisms underlying the metastatic process. GDS2546.qdab
GDS2547 Metastatic prostate cancer (HG-U95C) Analysis of metastatic prostate tumors and primary prostate tumors. Normal tissue adjacent to the tumor and normal donor tissue also examined. Metastasis reflects the most adverse clinical outcome. Results provide insight into the molecular mechanisms underlying the metastatic process. GDS2547.qdab
GDS2548 Preeclampsia: uteroplacental tissues Analysis of the deciduas, placentas, and fat tissues of preeclamptic women. The decidua and the placenta are two tissues of the uteroplacental unit. Results provide insight into the role of the uteroplacental renin-angiotensin system in the pathogenesis of preeclampsia. GDS2548.qdab
GDS2563 Cigarette smoking effect on T lymphocytes Analysis of T lymphocytes of 3 male heavy smokers. Results provide insight into sensitivity of T lymphocytes to cigarette smoking. GDS2563.qdab
GDS2565 Endothelial cell response to ultrafine particles Analysis of pulmonary artery endothelial cells HPAEC exposed to ultrafine particles for 4 hours. Results provide insight into the molecular basis of the association of pollutant particle exposure to increased cardiovascular mortality and morbidity. GDS2565.qdab
GDS2573 Far-upstream element binding protein inactivation Analysis of primary skin fibroblasts (Hs68) following siRNA knockdown of far-upstream element binding protein (FBP) 1, 2, or 3. Results provide insight into the function of each member of the FBP transactivator family. GDS2573.qdab
GDS258 Juvenile dermatomyositis muscle profile (HuGeneFL) Examination of skeletal muscle from juvenile dermatomyositis (JDM) patients, a common pediatric inflammatory myopathy. Muscle biopsies processed singly or in mixed groups of two. Patients genotyped for TNFalpha which is associated with prolonged disease. GDS258.qdab
GDS2601 Alzheimer blood mononuclear cells Analysis of blood mononuclear cells of sporadic Alzheimer disease (AD) and age- gender-matched normal controls. Results reveal insights into systemic nature of gene dys-regulation in sporadic AD and suggest novel pathways of beta-amyloid deposition. GDS2601.qdab
GDS2603 Arsenite and p53 effect on G2 synchronized fibroblasts Analysis of p53-expressing or p53-deficient fibroblasts exposed to arsenite (As) after release from G2 phase synchrony. p53 is activated in response to mitotic disruption by arsenic. Results provide insight into the role of p53 in the As-induced disruption of G2/M phase progression. GDS2603.qdab
GDS2604 Asbestos effect on epithelial and mesothelial lung cell lines: time course Analysis of epithelial and mesothelial lung cell lines at various time points up to 7 days after exposure to asbestos. Asbestos exposure causes lung diseases such as asbestosis, malignant mesothelioma, and lung cancer. Results provide insight into the pathogenesis of asbestos-associated diseases. GDS2604.qdab
GDS2606 Bronchial epithelial cell line response to various airway pathogens Analysis of bronchial epithelial BEAS-2B cells exposed to UV-inactivated Staphylococcus aureus, Pseudomonas aeruginosa, or respiratory syncytial virus. Results provide insight into the common and specific molecular responses of bronchial epithelial cells to various airway pathogens. GDS2606.qdab
GDS2609 Early onset colorectal cancer: normal-appearing colonic mucosa Analysis of normal-appearing colonic mucosa of early onset colorectal cancer (CRC) patients without a prior family history of CRC. Results provide insight into the molecular pathogenesis of early onset CRC. GDS2609.qdab
GDS2611 Interleukin-20 subfamily cytokines effect on epidermal keratinocytes Analysis of cultured epidermal keratinocytes treated with various cytokines of the interleukin-20 (IL-20) subfamily. IL-20 cytokines are up-regulated in psoriatic skin. Results provide insight into the role of IL-20 cytokines in the pathogenesis of psoriasis. GDS2611.qdab
GDS2613 Rett syndrome: brain frontal cortex Analysis of brain frontal cortices of individuals with Rett syndrome (RTT). RTT is an X-linked neurodevelopmental disorder linked to heterozygous de novo mutations in MECP2, a gene encoding methyl-CpG-binding protein 2. Results provide insight into molecular pathogenesis of RTT. GDS2613.qdab
GDS2615 Mucociliary differentiation of airway epithelial cells Analysis of primary airway epithelial cells cultured at an air-liquid interface for up to 28 days to induce their differentiation into polarized, pseudostratified epithelia of ciliated and mucus-secreting cells. Results provide insight into the mechanisms underlying mucociliary differentiation. GDS2615.qdab
GDS2617 Tumorigenic breast cancer cells (HG-U133A) Analysis of breast cancer cells that have high tumorigenic capacity. These cells express CD44 and low or undetectable levels of CD24. Results used to define a gene expression signature associated with metastasis. GDS2617.qdab
GDS2618 Tumorigenic breast cancer cells (HG-U133B) Analysis of breast cancer cells that have high tumorigenic capacity. These cells express CD44 and low or undetectable levels of CD24. Results used to define a gene expression signature associated with metastasis. GDS2618.qdab
GDS261 Asthma exacerbatory factors Comparison of epithelial cells derived from asthmatic and normal bronchial airways, and examination of factors that enhance inflammatory and immunologic responses which exacerbate asthma. Effects of ozone and rhinovirus examined. GDS261.qdab
GDS2622 Epidermal growth factor effect on mammary epithelial cell line: time course Analysis of mammary epithelial MCF10A cells following treatment with epidermal growth factor for various time points up to 480 minutes. Results provide insight into the dynamics of growth factor signaling. GDS2622.qdab
GDS2623 Epidermal growth factor effect on cervical carcinoma cell line: time course Analysis of cervical carcinoma HeLa cells following treatment with epidermal growth factor for various time points up to 480 minutes. Results provide insight into the dynamics of growth factor signaling. GDS2623.qdab
GDS2626 Epidermal growth factor and heregulin effect on breast cancer cell line: dose response and time course Analysis of MCF-7 breast cancer cells treated with various doses of epidermal growth factor (EGF) or heregulin (HRG) for up to 90 minutes. EGF and HRG induce distinct kinase kinetics and phenotypes of MCF-7 cells. Results provide insight into the linkage between signaling dynamics and cell fate. GDS2626.qdab
GDS2628 Vitamin D effect on bronchial smooth muscle cells Analysis of bronchial muscle cells treated with 1alpha,25-dihydroxy-vitamin D3, the ligand for the vitamin D receptor (VDR). Genetic variants in VDR are associated with asthma. Results provide insight into the molecular basis of this association. GDS2628.qdab
GDS262 Duchenne muscular dystrophy (HG-U95A) Examination of muscle biopsies from Duchenne muscular dystrophy patients and normal subjects of various age groups. Both mixed groups of patients (5 patient biopsies per group) and individual biopsies analyzed. GDS262.qdab
GDS2635 Invasive ductal and lobular breast carcinomas Analysis of invasive ductal carcinoma (IDC) cells, invasive lobular carcinoma (ILC) cells, and their normal counterparts. Cells obtained from postmenopausal breast cancer patients. Results provide insight into the molecular differences between IDC and ILC. GDS2635.qdab
GDS2642 Crohn’s disease and ulcerative colitis Analysis of colonoscopic biopsies from patients with Crohn’s disease (CD) or ulcerative colitis (UC). CD and UC are inflammatory bowel diseases with variable, overlapping clinical features and complex pathophysiologies. Results provide insight into the pathogenesis of CD and UC. GDS2642.qdab
GDS2643 Waldenstrom's macroglobulinemia: B lymphocytes and plasma cells Analysis of B lymphocytes (BL) and plasma cells (PC) from patients with Waldenstrom's macroglobulinemia (WM), a B-lymphoproliferative disorder (BLPD). Results provide insight into differences between PC and BL from WM and their cell counterpart in chronic lymphocytic leukemia and multiple myeloma. GDS2643.qdab
GDS2649 HIV infection effect on CD4+ and CD8+ T cells Analysis of CD4+ and CD8+ T cells from HIV patients at different clinical stages and rates of disease progression. Changes in T-cell function are a hallmark of HIV infection. Results provide insight into the pathogenic mechanisms in HIV infections that lead to these changes in T-cell function. GDS2649.qdab
GDS264 Duchenne muscular dystrophy (HG-U95D) Examination of muscle biopsies from Duchenne muscular dystrophy patients and normal subjects of various age groups. Both mixed groups of patients (5 patient biopsies per group) and individual biopsies analyzed. GDS264.qdab
GDS2652 Neonatal brain response to docosahexaenoic acid supplemented formulas Analysis of precentral gyri from neonates fed for 12 weeks with either a formula containing both 0.33% docosahexaenoic acid (DHA) and 0.67% arachidonic acid (ARA) or one with 1.0% DHA and 0.67% ARA. DHA and AHA are the major long chain polyunsaturated fatty acids of the central nervous system. GDS2652.qdab
GDS2653 Sequestosome 1 and dipeptidylpeptidase III overexpression effect on neuroblastoma cell line Analysis of IMR-32 neuroblastoma cells overexpressing sequestosome 1 (SQSTM1) or dipeptidylpeptidase III (DPP3). SQSTM1 and DPP3 activate the antioxidant response element (ARE). Results provide insight into mechanisms regulating the activation of the ARE. GDS2653.qdab
GDS2655 Fetal and adult reticulocytes (HG-U133A) Analysis of circulating blood reticulocytes from umbilical cords and normal adults. Reticulocytes are immature red blood cells containing residual RNA. Results provide insight into the molecular basis of terminal erythroid differentiation. GDS2655.qdab
GDS2656 Fetal and adult reticulocytes (HG-U133B) Analysis of circulating blood reticulocytes from umbilical cords and normal adults. Reticulocytes are immature red blood cells containing residual RNA. Results provide insight into the molecular basis of terminal erythroid differentiation. GDS2656.qdab
GDS2657 miR-124 overexpression: time course Analysis of HepG2 cells overexpressing miR-124 for up to 120 hours. Results combined with a computational method for predicting miRNA targets to identify targets of miR-124. GDS2657.qdab
GDS265 Duchenne muscular dystrophy (HG-U95E) Examination of muscle biopsies from Duchenne muscular dystrophy patients and normal subjects of various age groups. Both mixed groups of patients (5 patient biopsies per group) and individual biopsies analyzed. GDS265.qdab
GDS266 Asthma and atopy (HG-U133A) Investigation of CD4+ lymphocytes from patients with and without atopy, in combination with asthma. GDS266.qdab
GDS2676 CD38-positive and CD38-negative chronic lymphocytic leukemia cells Analysis of paired CD38(+) and CD38(-) chronic lymphocytic leukemia (CLL) cells from six patients. CD38 expression is an important prognostic marker in CLL with high levels of CD38 antigen associated with shorter overall survival. Results provide insight into the molecular basis of this association. GDS2676.qdab
GDS2678 Brain regions of humans and chimpanzees Comparison of various human and chimpanzee brain regions. Results provide insight into the genetic basis of human specializations in brain organization and cognition. GDS2678.qdab
GDS267 Asthma and atopy (HG-U133B) Investigation of CD4+ lymphocytes from patients with and without atopy, in combination with asthma. GDS267.qdab
GDS2682 Conjunctiva and cornea comparison Analysis of conjunctival (Cnj) and corneal (Co) epithelia, the main cellular components of the ocular surface. Cnj and Co epithelia are embryologically related but phenotypically and functionally disparate. Results provide insight into the molecular basis of these differences. GDS2682.qdab
GDS268 Obesity and fatty acid oxidation Identification of proteins involved in fatty acid oxidation in skeletal muscle. Fat oxidation may be reduced in morbidly obese individuals. Provides understanding of how obesity contributes to cardiovascular disease via insulin resistance. GDS268.qdab
GDS2695 Teratozoospermia (HumanRef-8 BeadChip) Analysis of sperm cells from males with consistent and severe teratozoospermia, a condition in which less than 4 percent of sperm cells are morphologically normal. Results provide insight into the molecular basis of a range of teratozoospermic presentations. GDS2695.qdab
GDS2696 Teratozoospermia (Human-6 BeadChip) Analysis of sperm cells from males with consistent and severe teratozoospermia, a condition in which less than 4 percent of sperm cells are morphologically normal. Results provide insight into the molecular basis of a range of teratozoospermic presentations. GDS2696.qdab
GDS2697 Teratozoospermia (HG-U133 2.0 ) Analysis of sperm cells from males with consistent and severe teratozoospermia, a condition in which less than 4 percent of sperm cells are morphologically normal. Results provide insight into the molecular basis of a range of teratozoospermic presentations. GDS2697.qdab
GDS2705 PPARgamma agonist and platinum-based drug effect on adenocarcinoma cell line Analysis of NSCLC adenocarcinoma cells treated with rosiglitazone, carboplatin, or both. Rosiglitazone is an agonist of the nuclear receptor PPARgamma. Results provide insight into the molecular basis of the synergy observed between rosiglitazone and platinum-based drugs in cancer models. GDS2705.qdab
GDS2706 Philadelphia chromosome positive acute lymphoblastic leukemia cell lines response to imatinib mesylate Analysis of Philadelphia chromosome (Ph) positive acute lymphoblastic leukemia cell lines BV173 and SUP-B15 treated with the anticancer drug imatinib mesylate (STI571). Ph encodes the oncogenic BCR-ABL1 kinase. Results provide insight into molecular basis of the transforming activity of BCR-ABL1. GDS2706.qdab
GDS270 Duchenne muscular dystrophy (HG-U95B) Examination of muscle biopsies from Duchenne muscular dystrophy patients and normal subjects of various age groups. Both mixed groups of patients (5 patient biopsies per group) and individual biopsies analyzed. GDS270.qdab
GDS2723 Primary immunodeficiency syndrome: B cells Analysis of immortalized B cells from 2 children with a primary immunodeficiency syndrome that is characterized by neutropenia, partial albinism, short stature, and B-cell and cytotoxic T-cell deficiencies. Results provide insight into the genetic basis of this syndrome. GDS2723.qdab
GDS2724 Transcriptional regulators Bmi-1 and Mel-18 depletion effect on medulloblastoma cell line Analysis of DAOY medulloblastoma cells following RNAi knockdown of Bmi-1, Mel-18, or both. Bmi-1 and Mel-18 belong to the Polycomb group (PcG) of transcriptional regulators. Results provide insight into the role of Bmi-1 and Mel-18 in the pathogenesis of medulloblastoma. GDS2724.qdab
GDS2728 CD133+ and CD133- glioblastoma-derived cancer stem cell lines Comparison of CD133+ and CD133- glioblastoma-derived cancer stem cells (CSC). Both CSC subpopulations were derived from primary glioblastomas. Results provide insight into the role of CD133+ and CD133- CSCs in the pathogenesis of glioblastoma. GDS2728.qdab
GDS2729 Cyclophosphamide-resistant chronic myelogenous leukemia cell line Analysis of chronic myelogenous leukemia (CML) cells resistant to cyclophosphamide (CP), an alkylating anticancer drug. Results provide insight into the molecular basis of CP resistance in CML. GDS2729.qdab
GDS2732 2-(3,4,5-trimethoxyphenylamino)-pyrrolo[2,3-d]pyrimidine effect on epidermal keratinocytes: time course Analysis of epidermal keratinocytes at various time points up to 48 hours following treatment with 2-(3,4,5-trimethoxyphenylamino)-pyrrolo[2,3-d]pyrimidine (PP). PP induces the terminal differentiation of epidermal keratinocytes. Results provide insight into the mechanism of action of PP. GDS2732.qdab
GDS2733 Cytosine arabinoside effect on Ewing’s sarcoma cell line: time course and dose response Analysis of Ewing’s sarcoma A673 cells for up to 5 days after treatment with cytosine arabinoside (ARA-C) at EC50 or twice the EC50. ARA-C identified as a modulator of the Ewing’s sarcoma EWS/FLI fusion protein. Results provide insight into the specificity of the response of A673 cells to ARA-C. GDS2733.qdab
GDS2735 Metastatic melanoma: peripheral blood lymphocytes Analysis of sorted peripheral blood lymphocytes (CD8 T cells, CD4 T cells, B cells, NK cells) from patients with melanoma. These subpopulations are involved in antitumor responses and negatively impacted by cancer. Results provide insight into molecular mechanisms of immune dysfunction in cancer. GDS2735.qdab
GDS2736 Malignant fibrous histiocytoma and various soft tissue sarcomas Analysis of malignant fibrous histiocytoma (MFH) tumors and various soft tissue sarcomas (STSs). MFH is characterized by non-recurrent complex chromosomal aberrations, and overlapping histological and immunohistochemical phenotypes. Results provide insight into the similarities between MFH and STSs. GDS2736.qdab
GDS2737 Endometriosis Analysis of endometrial specimens from women with endometriosis. Endometrial gene expression examined at various phases of the menstrual cycle. Results provide insight into the molecular pathogenesis of endometriosis. GDS2737.qdab
GDS2739 Hyperplastic enlarged lobular units: epithelial cells Analysis of epithelial cells isolated from hyperplastic enlarged lobular units (HELUs). HELUs arise from the enlargement of normal terminal duct lobular units by hyperplastic columnar epithelial cells and are the earliest histologically identifiable precursor of breast cancer. GDS2739.qdab
GDS2740 Lengthening and shortening contractions effect on the muscle: time course Analysis of skeletal muscles at various time points up to 24 hours after acute bouts of either lengthening (LCs) or shortening contractions (SCs). Resistance training using LCs results in greater increases in muscle size than SCs. Results provide insight into the molecular basis of this difference. GDS2740.qdab
GDS2744 Dioxin effect on breast cancer cell line (HG-U133A) Analysis of MCF-7 breast cancer cells treated with 100 nM dioxin. Although dioxin is causative for many types of cancers, low exposure to dioxin is associated with a decreased incidence of breast carcinoma. Results provide insight into the molecular basis of this protective effect. GDS2744.qdab
GDS2745 Dioxin effect on breast cancer cell line (HG-U133B) Analysis of MCF-7 breast cancer cells treated with 100 nM dioxin. Although dioxin is causative for many types of cancers, low exposure to dioxin is associated with a decreased incidence of breast carcinoma. Results provide insight into the molecular basis of this protective effect. GDS2745.qdab
GDS2749 Immature dendritic cell response to Aspergillus fumigatus infection in vitro Analysis of dendritic cells (DCs) infected with Aspergillus fumigatus (AF) in vitro. DCs obtained from two healthy donors. AF is a ubiquitous mold and a common cause of invasive aspergillosis (IA) in immunocompromised patients. Results provide insight into DC involvement in antifungal defense. GDS2749.qdab
GDS274 Hepatocellular carcinoma metastasis Generation of a molecular signature for metastatic hepatocellular carcinoma (HCC) and identification of genes relevant to metastasis and patient survival. Osteopontin identified as molecular marker for defining metastatic potential. GDS274.qdab
GDS2750 Immature dendritic cell response to hypoxia in vitro Analysis of immature dendritic cells (DCs) differentiated from monocytes under hypoxia for 4 days. DCs are antigen presenting cells whose development is influenced by the microenvironment. Hypoxia is an important constituent of the microenvironment of inflamed tissues. GDS2750.qdab
GDS2754 Exhaustive exercise effect on peripheral blood mononuclear cells and T lymphocytes Analysis of peripheral blood mononuclear cells and T lymphocytes from individuals before and after a bout of acute exhaustive exercise. White blood cell (WBC) subpopulations shift during physical activities. Results provide insight into the response of sorted WBC subpopulations to acute exercise. GDS2754.qdab
GDS2755 miR-34 overexpression Analysis of HCT116 cells overexpressing miR-34, a microRNA. miR-34 is commonly deleted in human cancers. Results provide insight into the function of miR-34. GDS2755.qdab
GDS2756 Measles: peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells (PBMCs) from measles patients. PBMCs collected upon hospital admission, at discharge, and one month after discharge. Results provide insight into the immunological changes that occur during measles infections. GDS2756.qdab
GDS2758 Hypoxia and 2-oxoglutrate-dependent dioxygenase inhibition (HG-U133A) Analysis of MCF-7 breast cancer cells exposed to hypoxia or treated with the non-specific 2-oxoglutarate (2-OG) dependent dioxygenase inhibitor dimethyloxalylglycine. Results provide insight into the role of 2-OG dioxygenases in the regulation of gene expression during hypoxia. GDS2758.qdab
GDS2759 Hypoxia and 2-oxoglutrate-dependent dioxygenase inhibition (Human-6 BeadChip) Analysis of MCF-7 breast cancer cells exposed to hypoxia or treated with the non-specific 2-oxoglutarate (2-OG) dependent dioxygenase inhibitor dimethyloxalylglycine. Results provide insight into the role of 2-OG dioxygenases in the regulation of gene expression during hypoxia. GDS2759.qdab
GDS2760 Hypoxia-inducible factor depletion (HG-U133 2.0) Analysis of hypoxic MCF-7 breast cancer cells depleted for hypoxia-inducible factor (HIF)-1alpha, HIF-2alpha, or both HIF alpha subunits. Results provide insight into the extent of the role of HIF-1alpha and HIF-2alpha in the regulation of gene expression during hypoxia. GDS2760.qdab
GDS2761 Hypoxia-inducible factor depletion (Human-6 BeadChip) Analysis of hypoxic MCF-7 breast cancer cells depleted for hypoxia-inducible factor (HIF)-1alpha, HIF-2alpha, or both HIF alpha subunits. Results provide insight into the extent of the role of HIF-1alpha and HIF-2alpha in the regulation of gene expression during hypoxia. GDS2761.qdab
GDS2763 Polycystic lipomembranous osteodysplasia with sclerosing leukoencephalopathy: dendritic cells Analysis of in vitro differentiated dendritic cells (DCs) from patients with PLOSL, an early onset dementia with bone cysts caused by mutations in DAP12 and TREM2 genes which encode important signaling molecules in DCs. Results provide further insight into mechanisms underlying PLOSL pathogenesis. GDS2763.qdab
GDS2767 Blood response to various beverages: time course Analysis of blood samples from 6 individuals at various time points up to 12 hours following the intake of water, ethanol, grape juice, or red wine. Results may contribute to elucidating the mechanisms underlying the cardioprotective effects of red wine. GDS2767.qdab
GDS2770 Estrogen effect on breast cancer cell line coexpressing estrogen receptors alpha and beta Analysis of estrogen receptor (ER) alpha positive MCF-7 breast cancer cells following introduction of ERbeta and treatment with estrogen. The majority of breast cancers express both ERalpha and ERbeta. Results provide insight into the comodulatory effects of these two ERs. GDS2770.qdab
GDS2771 Large airway epithelial cells from cigarette smokers with suspect lung cancer Analysis of large airway epithelial cells from cigarette smokers without cancer, with cancer, and with suspect lung cancer. Results provide insight into the feasibility of using gene expression to detect early stage lung cancer in smokers. GDS2771.qdab
GDS2772 Sevoflurane and propofol effect on the heart during off-pump coronary artery bypass graft surgery Analysis of atrial biopsies from patients receiving the anesthetic gas sevoflurane or the intravenous anesthetic propofol during off-pump coronary artery bypass graft surgery. Anesthetic gases protect against myocardial ischemia. Results provide insight into the basis of this protective effect. GDS2772.qdab
GDS2777 Bexarotene effect on gemcitabine resistant non-small lung cancer cell line Analysis of gemcitabine (Gem)-resistant non-small lung cancer Calu3 cells treated with bexarotene (Bex). Acquired drug resistance is a major obstacle in cancer therapy. Results provide insight into molecular mechanisms underlying the ability of bexarotene to overcome Gem-resistance in Calu3 cells. GDS2777.qdab
GDS2778 1,2,4-benzenetriol effect on peripheral blood mononuclear cells in vitro Analysis of cultured peripheral blood mononuclear cells treated with the benzene metabolite 1,2,4-benzenetriol. Benzene is an air pollutant and carcinogen. Results provide insight into the molecular basis of benzene cytotoxicity. GDS2778.qdab
GDS2779 Lymphoblastoid cell lines from monozygotic twin pairs discordant for bipolar disorder Analysis of lymphoblastoid cell lines derived from 3 monozygotic twin pairs discordant for bipolar disorder. Results provide insight into the molecular pathogenesis of bipolar disorder. GDS2779.qdab
GDS2780 Heavy metals effect on liver cell line Analysis of liver carcinoma HepG2 cells exposed to various heavy metals. Results provide insight into the molecular basis of heavy metal cytotoxicity. GDS2780.qdab
GDS2781 Nonsense mediated decay factor UPF1 depletion Analysis of HeLa cells depleted for the nonsense-mediated decay (NMD)-keys factor UPF1. NMD represents a key mechanism to control the expression of wild-type and aberrant mRNAs. Results provide insight into the extent of gene regulation mediated by UPF1 activity. GDS2781.qdab
GDS2782 Androgen response element specific DNA-binding polyamide effect on dihydrotestoterone-stimulated prostate cell line Analysis of DHT-stimulated LNCaP prostate cells treated with an androgen response (AR) element (ARE) specific DNA binding polyamide. Polyamide designed to target the sequence 5'-WGWWCW-3' and disrupt AR-mediated gene expression. Effects of the synthetic antiandrogen bicalutamide also examined. GDS2782.qdab
GDS2785 Ovarian cancer tumors after neo-adjuvant chemotherapy Analysis of malignant ovarian cancer tumors from patients receiving neo-adjuvant chemotherapy. Ovarian adenomas and untreated ovarian carcinomas also examined. Results used to define gene expression signatures associated with clinical responses to chemotherapy. GDS2785.qdab
GDS2787 LIM-only protein 4 induction effect on breast cancer cell line (HG-U133A) Analysis of breast cancer MCF-7 cells following the induction of expression of nuclear LIM-only protein 4 (LMO4). LMO4 is upregulated in breast cancer. Results provide insight into the role of LMO4 in promoting tumor formation. GDS2787.qdab
GDS2788 LIM-only protein 4 induction effect on breast cancer cell line (HG-U133B) Analysis of breast cancer MCF-7 cells following the induction of expression of nuclear LIM-only protein 4 (LMO4). LMO4 is upregulated in breast cancer. Results provide insight into the role of LMO4 in promoting tumor formation. GDS2788.qdab
GDS2789 LIM homeobox protein cofactor dominant negative form effect on breast cancer cell line Analysis of breast cancer MCF-7 cells after the induction of expression of a dominant negative form of the cofactor of LIM domains (CLIM), a co-regulator of the nuclear LIM only protein 4 (LMO4). LMO4 is upregulated in breast cancer. Results provide insight into the role of LMO4 in tumor formation. GDS2789.qdab
GDS2790 Skeletal muscle response to insulin infusion (HuGeneFL) Analysis of skeletal muscles from non-diabetics after a 3 hour infusion of insulin. Glucose uptake by skeletal muscles in response to insulin is impaired in type 2 diabetes. Results provide insight into the molecular mechanisms regulating glucose homeostasis in response to insulin. GDS2790.qdab
GDS2791 Skeletal muscle response to insulin infusion (HG-U133A) Analysis of skeletal muscles from non-diabetics after a 2 hour infusion of insulin. Glucose uptake by skeletal muscles in response to insulin is impaired in type 2 diabetes. Results provide insight into the molecular mechanisms regulating glucose homeostasis in response to insulin. GDS2791.qdab
GDS2794 T-cell acute lymphoblastic leukemia cell line response to Notch receptor inhibition Analysis of T-cell acute lymphoblast leukemia (T-ALL) MOLT4 cells following gamma-secretase inhibitor (GSI) DAPT treatment. Gamma-secretase activity is required for Notch 1 receptor signaling. Results provide insight into the role of Notch signaling in T-ALL development. GDS2794.qdab
GDS2795 Alzheimer's disease: neurofibrillary tangles Analysis of entorhinal cortex neurons containing neurofibrillary tangles (NFT) from 10 mid-stage Alzheimer's disease (AD) patients. Comparison with histopathologically normal neurons from the same patients and brain region. Results provide insight into the formation of NFTs in AD. GDS2795.qdab
GDS2808 Sepsis: neutrophils Analysis of neutrophils from critically ill patients with sepsis. Results used to define a gene expression signature for sepsis and provides insight into the host response to sepsis. GDS2808.qdab
GDS2810 Organized and growth-arrested mammary acini: time course Temporal analysis of two nonmalignant mammary epithelial cells (HMEC) grown in a laminin-rich extracellular matrix. Both HMECs transit from a disorganized to an organized state to form polarized acini. Results identify gene signatures with potential value for breast cancer prognosis prediction. GDS2810.qdab
GDS2819 Leukemic white blood cells and various RNA preparation protocols Analysis of RNA samples prepared from leukemic white blood cells using 3 different protocols. Samples obtained from 27 pediatric patients with various subtypes of acute leukemia. Results provide insight into the impact of RNA preparation methods on the variation in gene expression data. GDS2819.qdab
GDS2821 Parkinson’s disease: substantia nigra Analysis of substantia nigrae from postmortem brains of patients with Parkinson’s disease (PD). Neurons in the substantia nigra, which produces dopamine, degenerate in PD. Results provide insight into the molecular pathogenesis of PD. GDS2821.qdab
GDS2822 Placental malaria Analysis of inflamed placentas from patients with chronic placental malaria (PM). Chronic inflammation during PM is frequent in first time mothers and is associated with poor maternal and fetal outcomes. Results provide insight into the pathogenesis of chronic PM. GDS2822.qdab
GDS2824 Autism, fragile X syndrome, and 15q11-q13 duplication: lymphoblastoid cells Analysis of lymphoblastoid cells from males with autism due to a fragile X mutation or a 15q11-q13 duplication. Results provide insight into the pathogenesis of autism spectrum disorders. GDS2824.qdab
GDS2827 ERalpha-negative ERbeta-positive breast carcinoma response to tamoxifen Analysis of estrogen receptor (ER) alpha negative ERbeta-positive breast cancer tumors from patients treated with tamoxifen for 2 years. Unlike ERalpha-negative ERbeta-negative breast cancers, ERalpha-negative ERbeta-positive cancers respond favorably to tamoxifen treatment. GDS2827.qdab
GDS2831 Primary graft dysfunction after lung transplantation Analysis of donor lung biopsies from recipients that developed primary graft dysfunction after lung transplantation. Results provide insight into the pathogenesis of primary lung graft dysfunction. GDS2831.qdab
GDS2832 Sphingosine-1-phosphate effect on embryonic stem cells Analysis of embryonic stem cells (ESCs) after treatment with sphingosine-1-phosphate (S1P) which plays a role in regulation of fate in many cell types. ESCs grown on mouse embryo fibroblast feeder cells and under feeder-free conditions. Results provide insight into the role of S1P in ESC renewal. GDS2832.qdab
GDS2833 Polyomavirus JCV resistant glial cell line (HG-U133A) Analysis of SVGR2 glial cells resistant to the human polyomavirus JCV, the causative agent of progressive multifocal leukoencephalopathy. SVGR2 cells are derived from susceptible glial cells (SVG-A). Results provide insight into the molecular mechanisms underlying susceptibility to JCV infection. GDS2833.qdab
GDS2834 Polyomavirus JCV resistant glial cell line (HG-U133B) Analysis of SVGR2 glial cells resistant to the human polyomavirus JCV, the causative agent of progressive multifocal leukoencephalopathy. SVGR2 cells are derived from susceptible glial cells (SVG-A). Results provide insight into the molecular mechanisms underlying susceptibility to JCV infection. GDS2834.qdab
GDS2835 Ovarian endometriosis Comparison of endometriosis lesions to normal endometrial tissues obtained from the same patient at the same time. Results provide insight into the pathogenesis of endometriosis. GDS2835.qdab
GDS2838 Abdominal aortic aneurysm Analysis of aneurysmal abdominal aortas (AAAs). Abdominal aortic aneurysms are a common disorder and mortality from ruptured AAAs is high. Results provide insight into the pathogenesis of abdominal aortic aneurysm. GDS2838.qdab
GDS2842 Testicular seminoma progression Analysis of testicular seminoma tumors at various stages of progression (pT1, pT2, pT3). Results provide insight into the pathogenesis of testicular seminoma. GDS2842.qdab
GDS2847 Anisomycin effect on leukemia cell line: time course Analysis of myeloid leukemia U937 cells treated with anisomycin for various time points up to 6 hours. Anisomycin is a potent inducer of apoptosis. Results provide insight into the mechanism of action of anisomycin in inducing apoptosis. GDS2847.qdab
GDS2852 Interleukin 13 effect on bronchial cell line: time course Analysis of bronchial A549 cells at various time points up to 24 hours following treatment with the cytokine interleukin 13 (IL-13). IL-13 contributes to the pathogenesis of asthma. GDS2852.qdab
GDS2853 Low and high grade astrocytomas Comparison of low and high grade astrocytoma brain tumors. Results provide insight into the molecular differences between the two types of tumors. GDS2853.qdab
GDS2855 Various muscle diseases (HG-U133B) Analysis of muscle biopsy specimens from patients with various muscle diseases. Results provide insight into the diagnosis and pathogenesis of muscle diseases. GDS2855.qdab
GDS2856 Peripheral blood-derived monocytes response to lipopolysaccharide: time course Analysis of peripheral blood-derived monocytes at various time points up to 24 hours following treatment with lipopolysaccharide. Results compared with those obtained from Massively Parallel Signature Sequencing. GDS2856.qdab
GDS2858 Myeloid-related protein 8 and 14 effect on microvascular endothelial cells Analysis of microvascular endothelial cells (ECs) treated with the myeloid-related protein 8 (MRP8) and 14 (MRP14), proteins that form heterodimers secreted by phagocytes at inflammatory sites. Results provide insight into the role of MRP8 and MRP14 in EC cell death during inflammation. GDS2858.qdab
GDS2860 Aldosterone-producing adeonoma Analysis of aldosterone-producing adenoma (APA) samples from patients with primary hyperaldosteronism (PA). The source of aldosterone in many patients with PA is unilateral APA. Results provide insight into the mechanisms causing elevated aldosterone production in APA. GDS2860.qdab
GDS2861 X-Box binding protein overexpression effect on breast cancer cell line Analysis of MCF7 breast cancer (BC) cells overexpressing spliced X-box binding protein-1 (XBP1), a transcription factor that participates in the unfolded protein response (UPR). Results provide insight into the role of XBP1 and the UPR in estrogen and antiestrogen responsiveness in breast cancer. GDS2861.qdab
GDS2864 RhoGDIbeta depletion effect on breast cancer cell line Analysis of MDA-MB-231 breast cancer cells following RhoGDIbeta knockdown. RhoGDIbeta is a Rho guanine nucleotide dissociation inhibitor (RhoGDI) expressed in tumor cells. RhoGDIs negatively regulate the activity of Rho GTPases. GDS2864.qdab
GDS2865 Metastatic prostate tumor model Comparison of poorly and highly metastatic prostate subcutaneous tumors derived from xenotransplanted human PC-3 prostate cancer cells. Results provide insight into the molecular mechanisms contributing to prostate cancer metastasis. GDS2865.qdab
GDS2866 Monocyte-derived macrophages of chronic obstructive pulmonary disease patients response to fine and ultrafine particles Analysis of monocyte-derived macrophages from chronic obstructive pulmonary disease (COPD) patients after in vitro treatment with a mix of fine titanium dioxide (TiO2) and ultrafine Printex 90 particles, or lipopolysaccharide (LPS). TiO2 and Printex 90 are used in the manufacture of many products. GDS2866.qdab
GDS2867 TAp63alpha-Q540L mutant protein expression Analysis of H1299 cells expressing the TAp63alpha-Q540L mutant protein. TAp63alpha-Q540L is a form of p63 that contains a missense mutation in the SAM domain. Mutations in the SAM domain of p63 are associated with Hay-Wells syndrome. GDS2867.qdab
GDS2868 Inadequate dietary protein intake effect on the skeletal muscle Analysis of vastus lateralis skeletal muscle biopsies from older males and females (aged 55-80 years) before and during a diet inadequate in proteins. Results provide insight into the molecular changes in skeletal muscles brought about by inadequate dietary protein intake. GDS2868.qdab
GDS287 Muscle function and aging - male (HG-U133A) Comparison of gene expression in vastus lateralis skeletal muscle biopsies in healthy young (21-27 year old) and older (67-75 year old) men GDS287.qdab
GDS2880 Clear cell renal cell carcinoma (HG-U133A) Analysis of patient matched normal and stage 1 or stage 2 clear cell renal cell carcinoma (cRCC) tumors. Results provide insight into the molecular pathogenesis of cRCC. GDS2880.qdab
GDS2881 Clear cell renal cell carcinoma (HB-U133B) Analysis of patient matched normal and stage 1 or stage 2 clear cell renal cell carcinoma (cRCC) tumors. Results provide insight into the molecular pathogenesis of cRCC. GDS2881.qdab
GDS2883 LEDGF/p75 transcription factor deficiency effect on T-cell line Analysis of Jurkat T-cells depleted for the LEDGF/p75 transcription factor. LEDGF/p75 is involved in targeting HIV DNA integration. Results provide insight into the mechanisms controlling HIV integration. GDS2883.qdab
GDS2887 Moderate stage Huntington's disease lymphocytes Analysis of lymphocytes from patients with moderate stage Huntington's disease (HD). Results provide insight into the feasibility of using gene expression to identify biomarkers for moderate stage HD. GDS2887.qdab
GDS2889 Air pollutant and oxidized lipid effect on microvascular endothelial cells: dose response Analysis of microvascular endothelial cells treated at various concentrations of the model air pollutant diesel exhaust particles (DEP), an oxidized phospholipid (ox-PAPC), or both. Results provide insight into the synergistic effect of DEP and ox-PAPC in promoting vascular inflammation. GDS2889.qdab
GDS288 Muscle function and aging - male (HG-U133B) Comparison of gene expression in vastus lateralis skeletal muscle biopsies in healthy young (21-27 year old) and older (67-75 year old) men. GDS288.qdab
GDS2892 Optineurin depletion Analysis of HeLa cells depleted for optineurin using RNAi knockdown. Mutations in the gene for optineurin are associated with open-angle glaucoma. Results provide insight into the function of optineurin and its role in the pathogenesis of open-angle glaucoma. GDS2892.qdab
GDS289 Chronic obstructive pulmonary disease Study of the signaling mechanisms responsible for diaphragm muscle transformation from fast-to-slow fiber type in chronic obstructive pulmonary disease (COPD) patients. GDS289.qdab
GDS2902 Hypoxia and lymphathic endothelial cells Analysis of lymphatic endothelial cells (LECs) subjected to hypoxia or treated with conditioned media from lung carcinoma cells grown under hypoxic conditions. LECs contribute to tumor metastasis. GDS2902.qdab
GDS2904 Hematopoietic stem cell response to uridine triphosphate: time course Analysis of CD34+ hematopoietic stem cells treated for up to 24 hours with uridine triphosphate. GDS2904.qdab
GDS2908 T-cell prolymphocytic leukemia with inv(14)(q11q32) Analysis of T-cell prolymphocytic leukemia (T-PLL) cells with the cytogenetic abnormality inv(14)(q11q32). T-PLL is a rare aggressive lymphoma derived from mature T cells. Results provide insight into the pathogenesis of T-PLL. GDS2908.qdab
GDS2918 Colorectal cancer markers in plasma Analysis of blood plasma from patients with colorectal cancer. Results used to identify gene markers for colorectal cancer. GDS2918.qdab
GDS2919 Tremorogenic chemical harmane effect on astrocytes Analysis of astrocytes treated with the tremorogenic chemical harmane. Increased blood harmane concentration is associated with an increased risk of essential tremor. Astrocyte dysfunction is associated with neurodegenerative diseases. GDS2919.qdab
GDS2920 Testosterone effect on skeletal muscles of HIV-infected males experiencing weight loss Analysis of skeletal muscles of HIV-infected males experiencing weight loss after treatment with testosterone. HIV-associated wasting and weight loss are clinically significant concerns. Results provide insight into androgen action and the potential of anabolic therapies for wasting and sarcopenia. GDS2920.qdab
GDS2921 Wilms' tumor suppressor (WT1) targets: time course Analysis of U2OS osteosarcoma cells at various time points up to 12 hours following induction of a tetracycline-repressible Wilms' tumor 1 (WT1) gene encoding the -KTS isoform. WT1 encodes a zinc finger transcription factor that is involved in organ development. GDS2921.qdab
GDS2922 Ascending aortic aneurysms Analysis of aneurysmal tissue from ascending aortas of patients with normal tricuspid aortic valves or abnormal bicuspid aortic valves (BAVs). BAV is a congenital anomaly associated with an increased risk for ascending aortic aneurysm (AscAAs). Results provide insight into the pathogenesis of AscAA. GDS2922.qdab
GDS2926 Megakaryocytic differentiation: time course Temporal analysis of phorbol ester-treated CHRF-288-11 megakaryoblastic cells induced to undergo megakaryocytic (Mk) differentiation and primary Mk (PriMk) cells derived from cytokine-treated CD34+ peripheral blood cells. Results provide insight into molecular mechanisms underlying megakaryopoiesis. GDS2926.qdab
GDS2930 Cis-urocanic acid effect on keratinocytes Analysis of keratinocytes treated with cis-urocanic acid (UCA). UCA is an epidermal chromophore that undergoes trans to cis photoisomerization following ultraviolet radiation exposure. Results provide insight into the effect of cis-UCA on the cell-mediated immune response in the skin. GDS2930.qdab
GDS2931 Rheumatoid arthritis and osteoarthritis: synovial fibroblasts Comparison of synovial fibroblasts from patients with rheumatoid arthritis (RA) to those with osteoarthritis (OA). RA is characterized by chronic inflammation and destruction of multiple joints. OA is a degenerative disease resulting from the breakdown of cartilage. GDS2931.qdab
GDS2932 TGF-beta effect on normal and tumor cell lines: time course Analysis of normal lung epithelial HPL1D cells and lung adenocarcinoma A549 cells treated with TGF-beta for up to 12 hours. TGF-beta inhibits growth and promotes apoptosis in normal epithelial cells but acts as a pro-tumor cytokine by promoting tumour angiogenesis, immune-escape, and metastasis. GDS2932.qdab
GDS2933 Gingival epithelial cell line response to commensal and opportunistic oral microbial species Analysis of gingival epithelial HIGK cells co-cultured with the the oral commensal Streptococcus gordonii or the opportunistic commensal Fusobacterium nucleatum. Results provide insight into the mechanisms underlying the adaptation of hosts to commensals. GDS2933.qdab
GDS2935 Allergic contact dermatitis: time course Analysis of skin biopsies from nickel-allergic patients whose skins were exposed to nickel, a sensitizing hapten, for up to 96 hours to elicit allergic contact dermatitis (ACD). Results provide insight into molecular mechanisms underlying the pathogenesis of ACD. GDS2935.qdab
GDS2938 IFN-gamma and IL-1beta effect on thyroid epithelial cells (HG-U133A) Analysis of thyroid epithelial cells (TECs) treated with IFN-gamma, IL-1beta, or both. Fas-mediated apoptosis plays a role in the pathogenesis of autoimmune thyroid diseases. TECs are resistant to Fas-mediated apoptosis, but the resistance is overcome by pretreatment with IFN-gamma and IL-1beta. GDS2938.qdab
GDS2939 IFN-gamma and IL-1beta effect on thyroid epithelial cells (HG-U133A 2.0) Analysis of thyroid epithelial cells (TECs) treated with IFN-gamma, IL-1beta, or both. Fas-mediated apoptosis plays a role in the pathogenesis of autoimmune thyroid diseases. TECs are resistant to Fas-mediated apoptosis, but the resistance is overcome by pretreatment with IFN-gamma and IL-1beta. GDS2939.qdab
GDS2940 Dendritic cell response to TGF-beta1: time course Analysis of dendritic cells (DCs) at various time points up to 36 hours following treatment with TGF-beta1. DCs derived from CD34+ hematopoietic progenitor cells induced to differentiate in vitro. Results provide insight into the role of TGF-beta1 in DC development. GDS2940.qdab
GDS2941 Down syndrome: brain Analysis of postmortem brains of individuals with Down syndrome. Results provide insight into the pathogenesis of Down syndrome. GDS2941.qdab
GDS2942 Transcriptional pathways associated with skeletal muscle disuse atrophy in humans Disuse atrophy is a common clinical phenomenon which significantly impacts muscle function and activities of daily living. In this study, we did expression profiling to identify transcriptional pathways associated with muscle remodeling in a clinical model of disuse. GDS2942.qdab
GDS2947 Colorectal adenoma formation Analysis of colorectal adenomas and normal mucosas from 32 patients. Results provide insight into the molecular mechanisms underlying the formation of colorectal adenomas. GDS2947.qdab
GDS2951 Hypoxia effect on peripheral blood lymphocytes Analysis of peripheral blood lymphocytes (PBL) subjected to hypoxia in vitro. PBL were grown at 1% or 20% ambient oxygen. GDS2951.qdab
GDS2952 Rheumatoid arthritis response to anti-tumor necrosis factor treatment: whole blood Analysis of whole blood samples from rheumatoid arthritis (RA) patients following anti-tumor necrosis factor therapy. Results provide insight into the pathogenesis of RA and the molecular mechanisms associated with the response to anti-TNF treatment. GDS2952.qdab
GDS2954 Mycobacterium tuberculosis-derived lipopeptide effect on monocytes and dendritic cells: time course Analysis of monocytes (MOs) and MO-derived dendritic cells (DCs) for up to 24 hours following Mycobacterium tuberculosis-derived lipopeptide treatment. Toll-like receptor activation by bacterial lipopeptides reduced the viability of M. tuberculosis in MOs and macrophages but not MO-derived DCs. GDS2954.qdab
GDS2958 Tumor suppressor PTEN depletion effect on various cell lines Analysis of A431, HCC827, and SKBR-3 carcinoma cell lines depleted for the tumor suppressor PTEN. Inactivation of PTEN is a common genetic lesion in cancer. Results provide insight into the molecular basis of the oncogenic phenotypes resulting from PTEN deficiency. GDS2958.qdab
GDS2959 Granulocyte colony-stimulating factor mobilized leukocytes Analysis of leukocytes from individuals before and after the administration of granulocyte colony-stimulating factor (G-CSF). G-CSF is used to boost granulocyte counts in immunocompromised patients. Results provide insight into the effect of G-CSF on the immune system. GDS2959.qdab
GDS2960 Marfan syndrome: cultured skin fibroblasts Analysis of cultured skin fibroblasts prepared from patients with Marfan syndrome (MFS). MFS is a heritable connective tissue disorder caused by mutations in the fibrillin-1 gene. Results provide insight into the molecular pathogenesis of MFS. GDS2960.qdab
GDS2963 Vincristine-sensitive and resistant ovarian carcinoma cell lines Analysis of the vincristine-sensitive SKOV3 ovarian carcinoma cell line and its vincristine-resistant derivative. Vincristine is a chemotherapeutic agent used for the treatment of cancer. Results provide insight into the molecular mechanisms underlying the emergence of multidrug resistance. GDS2963.qdab
GDS2966 Resveratrol effect on lung carcinoma cell line Analysis of lung carcinoma A549 cells treated with resveratrol. Resveratrol is a phytoestrogen found in red wine. Results provide insight into protective effect of resveratrol against lung cancer. GDS2966.qdab
GDS2970 Polyamide-chlorambucil conjugate 1R-Chl effect on leukemia cell line Analysis of leukemia K562 cells treated with the polyamide-chlorambucil conjugate 1R-Chl. 1R-Chl down-regulates transcription of the human histone H4c gene and inhibits the growth of several cancer cell lines in vitro. GDS2970.qdab
GDS2971 Hemiasterlin analog HTI-286 effect on docetaxel-resistant prostate cancer cell line Analysis of prostate cancer LNCaP cells treated with the chemotherapeutic agent docetaxel or the hemiasterlin analog HTI-286. Like docetaxel, HTI-286 disrupts microtubule dynamics. But unlike docetaxel, HT-286 exhibits reduced multidrug resistance. GDS2971.qdab
GDS2975 TGF-beta 1 effect on immortalized ovarian surface epithelial cell line: time course Analysis of immortalized ovarian surface epithelial (IOSE) cells treated for up to 12 hours with transforming growth factor beta 1 (TGFb1). IOSE cells are derived from normal ovarian epithelial cells which, unlike ovarian cancer, respond to TGFb1-induced growth inhibition. GDS2975.qdab
GDS2978 Multiple sclerosis: brain Analysis of brains of individuals afflicted with multiple sclerosis (MS), a primary demyelinating disease of the central nervous system. Results provide insight into the molecular mechanisms underlying MS pathogenesis. GDS2978.qdab
GDS2987 Comparison of Rho kinase inhibitor and atorvastatin effects on primary cell lines Analysis of three primary cell lines treated with Rho kinase (ROCK) 2 inhibitor SLx-2119 or with atorvastatin. Effects of ROCK inhibitors overlap to some extent with the pleiotropic (nonlipid lowering) effects of statins. Results suggest possible synergistic effects between the two classes of drugs. GDS2987.qdab
GDS2988 Paeoniflorin effect on lymphoma cell line: time course Analysis of U937 lymphoma cells at various time points up to 6 hours following treatment with paeoniflorin (PF). PF, isolated from paeony roots, causes apoptosis and is a chemical heat shock protein (HSP) inducer. Results provide insight into the molecular mechanisms of action of this compound. GDS2988.qdab
GDS2990 Cigarette smoking effect on full-term placenta Analysis of full-term placentas exposed to maternal cigarette smoke. The placenta produces and metabolizes steroids and xenobiotics. Results provide insight into the effects of maternal cigarette smoking on the placenta at term, with a focus on xenobiotic- and steroid-metabolizing genes. GDS2990.qdab
GDS3003 House dust mite extract effect on a bronchial epithelial cell line Analysis of H292 bronchial epithelial cells exposed to house dust mite (HDM) extract. More than just a physical barrier, epithelium can produce mediators in response to pathogens and allergens. Results provide insight into the nature of the response of bronchial epithelial cells to HDM allergen. GDS3003.qdab
GDS3004 Heat stress effect on an epithelial cell line Analysis of HEp2 epithelial cells subjected to heat stress at temperatures of 37 to 40 degrees C. Results provide insight into the regulatory pathways that control the response to heat stress. GDS3004.qdab
GDS3005 Macrophage response to interleukins 1 and 6 Analysis of cultured monocyte-derived macrophages (MDM) stimulated with interleukin (IL) 1 or IL-6 for 4 hours. Cytokines IL-1 and IL-6 are not only produced by macrophages but also affect the cells in an autocrine manner. Results provide insight into IL-1 and IL-6 responsive genes in MDMs. GDS3005.qdab
GDS3007 Kaposi's sarcoma-associated herpesvirus microRNA-K12-11 expression Analysis of cells expressing microRNA (miR) K12-11 from Kaposi's sarcoma-associated herpesvirus. miR-K12-11 shares sequence homology with hsa-miR-155, a miRNA up-regulated in lymphomas and important in B cell development. Results provide insight into the biological activity of miR-K12-11. GDS3007.qdab
GDS3011 Interleukin-1 effect on epidermal keratinocytes: time course Analysis of epidermal keratinocytes at various time points up to 48 hours post-interleukin-1 (IL-1) treatment. IL-1 is a proinflammatory and immunomodulatory cytokine that plays a role in inflammatory diseases of the skin. Results provide insight into gene products that mediate the effects of IL-1. GDS3011.qdab
GDS3012 DNA methylation inhibitor effect on melanoma cell lines Analysis of six melanoma cell lines treated with the DNA methylation inhibitor 5-aza-2'-deoxycytidine (5AzadC). Results provide insight into the role of epigenetic silencing by DNA methylation in the pathogenesis of melanoma. GDS3012.qdab
GDS3017 Cervical cancer response to chemoradiotherapy Analysis of cervical cancer biopsy samples from patients receiving radiotherapy alone or radiotherapy plus concomitant chemotherapy with cisplatin (CRT). Results provide insight into the molecular mechanisms underlying the therapeutic response to CRT. GDS3017.qdab
GDS3027 Early-early stage Duchenne muscular dystrophy: quadriceps Analysis of skeletal muscles from 1.5 to 61 month old children with Duchenne muscular dystrophy (DMD). DMD is a degenerative skeletal muscle disease caused by mutations in the dystrophin gene. Results provide insight into the early phases of DMD pathogenesis and pathophysiology. GDS3027.qdab
GDS3029 Small-cell lung carcinoma cell lines of varying sensitivity to a Bcl-2 antagonist Analysis of small-cell lung carcinoma cell (SCLC) lines. Expression profiles compared to the cell lines' sensitivity to the Bcl-2 antagonist ABT-737 and chromosomal gains that include changes in Bcl-2 gene copy number. ABT-737 induces the regression of a fraction of SCLC solid tumors. GDS3029.qdab
GDS3032 Quercetin effect on intestinal cell differentiation in vitro: time course Analysis of post-confluent Caco-2 colon cancer cells up to 10 days after treatment with ascorbate-stabilized quercetin, a polyphenol antioxidant compound. Caco-2 cells differentiate after reaching confluency. Results provide insight into quercetin's role in cell-proliferation and -differentiation. GDS3032.qdab
GDS3034 Candida albicans effect on endothelial cell line Analysis of HUVEC umbilical vein endothelial cells (EC) exposed to Candida albicans blastopsores. ECs actively participate in the innate defense against microbial pathogens. Results provide insight into molecular mechanisms underlying the endothelial stress response to Candida infection. GDS3034.qdab
GDS3041 Encapsulated Streptococcus pneumoniae strains effect on pharyngeal epithelial cell line Analysis of pharyngeal epithelial cells exposed to various encapsulated strains of Streptococcus pneumoniae. Nasopharynx colonization by S. pneumoniae is mediated by adherence to the respiratory epithelium. Results provide insight into the capsule-dependent host response to pneumococcal adherence. GDS3041.qdab
GDS3042 Imatinib effect on K562 leukemia cell line (I) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3042.qdab
GDS3043 Imatinib effect on K562 leukemia cell line (II) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3043.qdab
GDS3044 Imatinib effect on K562 leukemia cell line (III) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3044.qdab
GDS3045 Imatinib effect on K562 leukemia cell line (IV) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3045.qdab
GDS3046 Imatinib effect on K562 leukemia cell line (V) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3046.qdab
GDS3047 Imatinib effect on K562 leukemia cell line (VI) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3047.qdab
GDS3048 Imatinib effect on K562 leukemia cell line (VII) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3048.qdab
GDS3049 Imatinib effect on K562 leukemia cell line (VIII) Analysis of K562 leukemia cells treated with 1 uM imatinib for 24 hours. Imatinib is a highly selective and potent growth-inhibitor of BCR/ABL1 expressing cells such as K562. Results provide insight into molecular mechanisms underlying BCR/ABL1-mediated leukemogenesis. GDS3049.qdab
GDS3051 Fibroblast cell line response to two and three dimensional collagen-glycosaminoglycan culture environments Analysis of IMR-90 fibroblasts cultured in a two- or a three-dimensional collagen-glycosaminoglycan (GAG) environment. The 3-D presentation of collagen-GAG stimulates increased fibroblast remodeling activity. Results provide insight into molecular changes elicited by the 3-D collagen-GAG interface. GDS3051.qdab
GDS3054 Cigarette smoking effect on the buccal epithelium Analysis of buccal epithelia from cigarette smokers. Cigarette smoke creates a field of injury in epithelial cells lining the respiratory tract. Results extend the concept of a smoking-induced field of injury beyond intrathoracic (bronchial) epithelia to extrathoracic epithelia that line the mouth. GDS3054.qdab
GDS3057 Acute myeloid leukemia Comparison of leukemic blasts from 26 acute myeloid leukemia (AML) patients with normal hematopoietic cells at a variety of different stages of maturation from 38 healthy donors. Results provide insight into the possible clinical significance of those genes with AML-specific expression changes. GDS3057.qdab
GDS3060 Endometriosis: endometrial endothelial cells Analysis of cultured endometrial endothelial cells derived from the eutopic endometria of patients with endometriosis. Results provide insight into the role of aberrant angiogenesis in the pathogenesis of endometriosis. GDS3060.qdab
GDS3062 Multipotent stromal cell expansion in vitro Temporal analysis of cultures of multipotent stromal cells (MSCs) from bone marrow aspirates from 3 donors. On day 2, the MSCs are in transition from lag phase to log phase; on day 7, they are in stationary phase. Results provide insight into the molecular changes in MSCs during in vitro expansion. GDS3062.qdab
GDS3068 Primary hepatocytes and HepG2 liver cells response to various fluoroquinolones Analysis of primary hepatocytes (PHs) and HepG2 liver cells treated with various fluoroquinolones. PHs are used in drug metabolism research, and HepG2 cells are surrogates for PHs. Results provide insight into the differences in the response of PHs and HepG2 cells to xenobiotics. GDS3068.qdab
GDS3069 Various brain tumors Analysis of 12 primary brain tumor biopsies with some variation in their histological diagnoses. These results, together with those obtained from miRNA profiling by real-time PCR, provide insight into the relationship between endogenous fluctuations in miRNA and mRNA expression levels. GDS3069.qdab
GDS3071 Keloid fibroblast response to hydrocortisone in vitro Analysis of keloid fibroblasts (FBs) treated with 1.5uM hydrocortisone (HC). Keloids are benign dermal tumors that form during protracted wound healing. HC at 1.5uM inhibits collagen and elastin synthesis in normal scar FBs but not in keloid FBs. Results provide insight into keloid pathogenesis. GDS3071.qdab
GDS3073 Neutrophil response to aerobic exercise Analysis of neutrophils from healthy males before and after 30 minutes of aerobic exercise. The number of circulating neutrophils increases after exercise. Results provide insight into the molecular response of these immune cells to exercise. GDS3073.qdab
GDS3082 Allergic nasal epithelium response to house dust mite allergen in vitro Analysis of cultured nasal epithelia prepared from healthy and allergic individuals following exposure to house dust mite (HDM) extract in vitro. Results provide insight into the molecular mechanisms underlying the allergic response of the nasal epithelia to allergens. GDS3082.qdab
GDS3085 Gram-positive and gram-negative sepsis: leukocytes Analysis of leukocytes from patients with gram-positive or gram negative sepsis. Results provide insight into the specificity of the host response to gram-positive and gram negative sepsis. GDS3085.qdab
GDS3088 Leukotriene B4 effect on monocytes: time course Analysis of primary monocytes treated for up 16 hours with leukotriene B4 (LTB4) in vitro. LTB4 is a mediator of inflammation. Monocytes express the cell surface receptors BLT1 and BLT2 that mediate the action of LTB4. Results provide insight into the transcriptional response of monocytes to LTB4. GDS3088.qdab
GDS3089 Tretinoin effect on promyelocytic leukemia cell line Analysis of promyelocytic leukemia HL60 cells treated with tretinoin (all-trans retinoic acid; ATRA) or vehicle. ATRA induces terminal differentiation or growth arrest in HL60 cells. Results suggest a 90-gene expression signature for this cell culture model of hematopoietic differentiation. GDS3089.qdab
GDS3091 Noncancerous hepatic tissues from hepatocellular carcinoma patients with and without venous metastasis Analysis of noncancerous hepatic tissues surrounding tumors from hepatocellular carcinoma (HCC) patients with and without venous metastasis. Results provide insight into the role of the hepatic microenvironment in HCC metastasis. GDS3091.qdab
GDS3092 Endometriosis Analysis of ectopic endometrial tissues implanted in the peritoneal cavity of 11 subjects. The growth of endometrial tissue outside of the uterus is called endometriosis. Results provide insight into the molecular pathology of endometriosis. GDS3092.qdab
GDS3095 Zinc effect on malignant and non-malignant prostate cell lines: time course Analysis of malignant PC-3 and non-malignant HPR-1 prostate cells treated for up to 6 hours with zinc. Zinc exposure induces apoptosis in PC-3 cells, but not in HPR-1 cells. Results provide insight into the molecular mechanisms underlying zinc-induced prostatic cell apoptosis. GDS3095.qdab
GDS3096 Inflammatory breast cancer: stroma Analysis of stromata surrounding tumors from patients with inflammatory breast cancer (IBC) and invasive non-IBC. This is part of a study that also examines the expression profiles of tumors. Results provide insight into the contribution of the tumor stroma component to the pathogenesis of IBC. GDS3096.qdab
GDS3097 Inflammatory breast cancer: tumor Analysis of tumor epithelia from patients with inflammatory breast cancer (IBC) and invasive non-IBC. This is part of a study that also examines the expression profiles of stromata surrounding tumors. Results provide insight into the contribution of the tumor component to the pathogenesis of IBC. GDS3097.qdab
GDS3100 Skeletal muscles of postmenopausal women with and without hormone replacement Analysis of skeletal muscles of postmenopausal women treated with hormone replacement therapy (HRT) or with a placebo. Menopause is accompanied by age-associated changes in muscle structure and function. Results provide insight into the effect of HRT and estrogen deprivation on skeletal muscles. GDS3100.qdab
GDS3101 Non-small cell lung carcinoma cell line response to cisplatin Analysis of cisplatin-resistant A549 lung adenocarcinoma cell line treated with cisplatin, a chemotherapy drug. Its cytotoxic effects are likely due to the DNA damage it induces in cells. Results provide insight into molecular mechanisms underlying the response of A549 to cisplatin insult. GDS3101.qdab
GDS3104 Insulin-resistant polycystic ovary syndrome: muscle Analysis of vastus lateralis muscles from women with insulin-resistant polycystic ovary syndrome (PCOS). Insulin resistance in skeletal muscles is a risk factor for the development of type 2 diabetes in women with PCOS. Results provide insight into the pathogenesis of insulin resistance in PCOS. GDS3104.qdab
GDS3105 Cimicifuga racemosa extract effect on breast cancer cell line MCF-7 Analysis of MCF-7 breast cancer cells treated with a Cimicifuga racemosa extract. Extracts from the C. racemosa rhizome are used as an herbal alternative to hormone replacement therapy for alleviation of postmenopausal disorders. Results provide insight into the extract's molecular mode of action. GDS3105.qdab
GDS3110 Hypothalamic hamartoma and central precocious puberty Analysis of hypothalamic hamartomas (HHs) from patients with or without central precious puberty (CPP). HHs are congenital lesions composed of neurons and astroglia often associated with CPP. Results provide insight into the mechanisms that initiate normal puberty. GDS3110.qdab
GDS3111 Prostate cancer cell line response to dihydrotestosterone: time course Analysis of LNCaP prostate cancer cells treated with the androgen dihydrotestosterone (DHT). DHT binds to androgen receptor (AR), a ligand dependent transcription factor that plays a key role in prostate cancer. Results provide insight into mechanisms underlying AR-dependent prostate cancer growth. GDS3111.qdab
GDS3112 Hypoxia effect on cultured aortic smooth muscle cells Analysis of aortic smooth muscle cells incubated for 16 hrs or 48 hrs under hypoxic conditions (1% or 3%O2). Smooth muscle cell proliferation and survival are modulated by hypoxia. Results provide insight into molecular mechanisms underlying oxygen regulation of arterial smooth muscle cells. GDS3112.qdab
GDS3113 Various normal tissues Analysis of various normal tissues. Results provide insight into housekeeping and tissue-specific genes. GDS3113.qdab
GDS3115 Heart failure: peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells from chronic heart failure (CHF) patients with ischemic or non-ischemic cardiomyopathy (ICM or NICM). Results provide insight into diagnostic/prognostic markers and CHF gene expression profiles. GDS3115.qdab
GDS3116 Letrozole effect on breast cancer tumors Analysis of breast cancer tumors following treatment with letrozole for 14 days. The aromatase inhibitor letrozole is an anti-estrogen drug used to treat postmenopausal women with breast cancer. Results provide insight into the molecular mechanism of action of letrozole in breast cancer. GDS3116.qdab
GDS3119 Ulcerative colitis Analysis of colonic mucosa samples with or without signs of inflammation from patients with ulcerative colitis (UC), a type of inflammatory bowel disease (IBD). Results provide insight into the molecular mechanisms contributing to the development of inflammation in UC. GDS3119.qdab
GDS3124 Radioresistant tumor response to ionizing radiation Analysis of nu61 radioresistant tumors following exposure to ionizing radiation. Nu61 tumors derived from the radiosensitive squamous cell carcinoma cell line SCC61. Results provide insight into the molecular basis of acquired tumor radioresistance. GDS3124.qdab
GDS3125 Radioresistant tumor response to ionizing radiation: time course Analysis of nu61 radioresistant tumors 5 and 24 hours following exposure to ionizing radiation. Nu61 tumors derived from the radiosensitive squamous cell carcinoma cell line SCC61. Results provide insight into the molecular basis of acquired tumor radioresistance. GDS3125.qdab
GDS3126 Radioresistant tumor response to interferons Analysis of nu61 radioresistant tumors following treatment with a mixture of interferons (IFNs) alpha, beta, and gamma. Nu61 tumors derived from the radiosensitive squamous cell carcinoma cell line SCC61. Results provide insight into the role of the IFN signaling pathway in tumor radioresistance. GDS3126.qdab
GDS3127 Diesel exhaust inhalation effect on peripheral blood mononuclear cells: time course Analysis of peripheral blood mononuclear cells from individuals exposed to diesel exhaust (DE), a major source of urban fine particulate matter (FPM). Exposure to ambient FPM is associated with cardiovascular disease. Results provide insight into molecular mechanisms underlying such health effects. GDS3127.qdab
GDS3128 Parkinson's disease: substantia nigra (HG-U133A) Analysis of medial and lateral substantia nigras (SNs) from post-mortem brain samples obtained from individuals with sporadic Parkinson's disease (PD). The SN exhibits extensive tissue damage in PD. Results provide insight into the pathogenesis of PD. GDS3128.qdab
GDS3129 Parkinson's disease: substantia nigra (HG-U133B) Analysis of medial and lateral substantia nigras (SNs) from post-mortem brain samples obtained from individuals with sporadic Parkinson's disease (PD). The SN exhibits extensive tissue damage in PD. Results provide insight into the pathogenesis of PD. GDS3129.qdab
GDS3138 Metastatic breast cancer cell line response to restored miR-335 expression Analysis of breast cancer LM2 cells transfected with a vector expressing microRNA miR-335. LM2 is metastatic to lung. miR-335 expression is lost as breast cancer cells develop metastatic potential. Restoring miR-335 expression inhibits metastatic cell invasion of lung cancer cells. GDS3138.qdab
GDS3139 Breast cancer: histologically normal breast epithelium Analysis of histologically normal breast epithelia of breast cancer patients. Results provide insight into the molecular abnormalities in normal appearing breast epithelium in breast cancer and the roles these abnormalities play in carcinogenesis. GDS3139.qdab
GDS3141 Colorectal mucosae from various regions of the large intestine Analysis of colorectal mucosae from various regions of the normal large intestine. Results provide insight into the range of variation of gene expression in normal tissues. GDS3141.qdab
GDS3147 GL7 determinant in various B-cell lines Analysis of B-cell lines representing myeloma and Burkitt's lymphoma and exhibiting varied GL7 epitope expression. GL7high B-cells have higher functional activity for producing antibodies and presenting antigens. Results identify a candidate gene responsible for the biosynthesis of the GL7 epitope. GDS3147.qdab
GDS3155 Dasatinib resistant and sensitive prostatic cancer cell lines Analysis of 16 prostatic cancer cell lines treated with anti-tumor agent dasatinib. The cell lines display sensitivity or resistance to dasatinib. Results used to define a gene expression profile associated with sensitivity to dasatinib. GDS3155.qdab
GDS3158 Rheumatoid arthritis-related cartilage destruction model: chondrocytes Analysis of chondrocytes treated with a supernatant from SV40 T-antigen immortalized human synovial fibroblasts derived from a patient with rheumatoid arthritis (RA). Results provide insight into the molecular mechanism underlying RA-related cartilage destruction. GDS3158.qdab
GDS3160 Methotrexate resistant colon cancer cell line Analysis of HT29 derived colon cancer cells resistant to the anticancer drug methotrexate (MTX). Results provide insight into the molecular mechanisms contributing to MTX resistance. GDS3160.qdab
GDS3175 NF-kappaB and phosphotidylinositol 3-kinase inhibitor treated monocytes infected with the human cytomegalovirus Analysis of monocytes treated with an NF-kappaB or a phosphatidylinositol 3-kinase (PI3K) inhibitor and then infected with the human cytomegalovirus (HCMV). Results provide insight into the role of NF-kappaB and PI3K in the activation of monocytes to a proinflammatory state after an HCMV infection. GDS3175.qdab
GDS3177 Confluent and sub-confluent umbilical vein endothelial cell cultures Analysis of umbilical vein endothelial cells grown to sub-confluency or confluency. Results provide insight into the molecular mechanisms underlying endothelial barrier formation. GDS3177.qdab
GDS3179 Lung metastatic breast cancer cell line response to metadherin depletion Analysis of LM2 breast cancer cells depleted for metadherin (MTDH), a cell surface protein in breast tumors that mediates lung metastasis. LM2 cells were grown alone or on a monolayer of lung microvascular endothelial cells. Results provide insight into molecular mechanisms underlying MTDH action. GDS3179.qdab
GDS3181 Acute physiologic hyperinsulinemia effect on the skeletal muscle: time course Analysis of skeletal muscles from normal, healthy glucose-tolerant individuals exposed to acute physiological hyperinsulinemia for up to 4 hours. Results suggest a low-grade inflammatory response which may provide insight into the etiology of insulin resistance in type 2 diabetes and obesity. GDS3181.qdab
GDS3182 Young and aged skeletal muscles response to long-term vigorous endurance exercise Analysis of skeletal muscles from young and aged individuals undergoing vigorous endurance exercise training for over 4 years. Results provide insight into the effects of endurance exercise on age-related insulin resistance and mitochondrial dysfunction. GDS3182.qdab
GDS3191 Natural killer cell response to interleukin-2 treatment: time course Analysis of resting natural killer (NK) cells and NK cells activated with interleukin-2 (IL-2) for up to 24 hours. The effector function of NK cells is enhanced by cytokines such as IL-2. Results provide insight into the molecular events in NK cell activation. GDS3191.qdab
GDS3192 Rheumatoid arthritis: synovial macrophages Analysis of synovial fluid macrophages from 5 patients with rheumatoid arthritis (RA). The chronic inflammation and progressive joint destruction observed in RA are mediated in part by macrophages. Results provide insight into the molecular mechanisms underlying RA pathogenesis. GDS3192.qdab
GDS3193 Monocyte-derived dendritic cell response to VAF347 Analysis of immature monocyte-derived dendritic cells following activation with anti-CD40 antibodies for 8 hours in the presence of VAF347. VAF347 is a low molecular weight compound that inhibits allergic lung inflammation in vivo. Results provide insight into the mechanism of action of VAF347. GDS3193.qdab
GDS3196 Non-thermal low intensity pulsed ultrasound effect on leukemia cell line Analysis of leukemia U937 cells exposed to non-thermal low intensity pulsed ultrasound (LIPUS) for 6 hours to induce apoptosis. Results provide insight into the molecular mechanisms underlying the apoptotic response to nonthermal LIPUS. GDS3196.qdab
GDS3203 Monocyte to macrophage differentiation Analysis of monocytes following up to 168 hours of adherence-induced differentiation. Monocytes differentiate into macrophages, which are critical in the pathogenesis of many diseases. Results provide insight into the molecular mechanisms underlying monocyte to macrophage differentiation. GDS3203.qdab
GDS3207 Chronic loneliness effect on peripheral blood leukocytes Analysis of leukocytes from individuals experiencing chronically high levels of subjective social isolation (loneliness). Social environment is known to influence human health. Results provide insight into transcriptional alterations in the immune system induced by chronic social isolation. GDS3207.qdab
GDS3211 Gingival epithelial cell line response to oral pathogen infections Analysis of gingival epithelial HIGK cells infected with Aggregatibacter actinomycetemcomitans or Porphyromonas gingivalis. A. actinomycetemcomitans and P. gingivalis cause periodontal infections. Results provide insight into differences in epithelial cell responses to these pathogens. GDS3211.qdab
GDS3215 13-cis retinoic acid effect on SEB-1 sebocyte cell line Analysis of cultured sebaceous gland cells (SEB-1 sebocytes) treated with 13-cis retinoic acid (13-cis RA, isotretinoin), a potent acne treatment agent that reduces the size and secretion of sebaceous glands. Results provide insight into the molecular basis for 13-cis RA's acne-clearing effect. GDS3215.qdab
GDS3217 Estradiol effect on breast cancer cell line expressing estrogen receptor: time course Analysis of estrogen receptor (ER)-positive MCF7 breast cancer cells up to 48 hours following treatment with estradiol (E2). ERs facilitate the transcriptional effects of hormones. These results, together with ChIP-PET results, suggest potential correlations between ER binding and gene regulation. GDS3217.qdab
GDS3218 13-cis retinoic acid effect on skin Analysis of upper back skin biopsies of acne patients treated with 13-cis retinoic acid (13-cis RA, isotretinoin), a potent acne treatment agent that reduces the size and secretion of sebaceous glands. Results provide insight into the molecular basis for 13-cis RA's acne-clearing effect. GDS3218.qdab
GDS3220 YAP overexpression effect on MCF10A mammary epithelial cell line Analysis of MCF10A mammary epithelial cells overexpressing the transcriptional coactivator YAP. The Hippo pathway impinges on YAP in mammals to coordinate cell proliferation and apoptosis. Results provide insight into molecular components of the Hippo pathway in mammalian cells. GDS3220.qdab
GDS3233 Cervical cancer tumorigenesis Analysis of cervical cancer (CC) primary tumors and cell lines. Chromosomal amplification is a common cellular mechanism of gene activation in tumorigenesis; chromosome 20 is a commonly gained chromosome in CC. Results provide insight into the potential role of chromosome 20 gain in CC progression. GDS3233.qdab
GDS3256 Metaphase II stage oocytes matured in vivo Analysis of young, untreated metaphase II (MII) oocytes. Results provide insight into the baseline of genes expressed in in vivo matured oocytes and into the molecular mechanisms underlying biological processes such as oogenesis, folliculogenesis, fertilization, and embryonic development. GDS3256.qdab
GDS3257 Cigarette smoking effect on lung adenocarcinoma Analysis of different tumor stage adenocarcinoma and paired normal lung tissues of current, former and never smokers. To date, tobacco smoking is responsible for over 90% of lung cancers. Results provide insight into the molecular basis of lung carcinogenesis induced by smoking. GDS3257.qdab
GDS3258 Monocyte-derived macrophage response to decoy receptor 3 Analysis of monocyte-derived macrophages (MDMs) treated with decoy receptor 3 (DcR3) recombinant fusion protein. DcR3, a TNF receptor superfamily member, is up-regulated in tumors from diverse lineages. Results provide insight into the role of DcR3 in tumor-associated macrophage (TAM) development. GDS3258.qdab
GDS3260 Intestinal tissue xenograft response to pathogen Shigella flexneri infection in vivo Analysis of human intestinal xenotransplants infected with Shigella flexneri (virulent wild-type M90T, virulent mxiE mutant, and avirulent BS176 strains). Virulent S. flexneri are highly contagious enteric pathogens. Results provide insight into the intestinal innate immune response to infection. GDS3260.qdab
GDS3262 Pediatric malignant germ cell tumors: yolk sac tumors and seminomas Analysis of yolk sac tumors (YSTs) and seminomas, the two principal histological variants of pediatric malignant germ cell tumors (MGCTs). Seminomas and YSTs are presumed to arise from the same progenitor cell. Results provide insight into the molecular basis for the divergence of pediatric MGCTs. GDS3262.qdab
GDS3268 Colon epithelial biopsies of ulcerative colitis patients Analysis of inflamed and un-inflamed colon epithelial biopsies of 67 ulcerative colitis (UC) patients from different anatomical locations of the gastrointestinal (GI) tract. Results provide insight into the regional variation of gene expression in UC patients and the pathogenesis of UC. GDS3268.qdab
GDS3274 Chromophobe renal cell carcinoma and oncocytoma Comparison of chromophobe renal cell carcinoma (RCC) and benign oncocytoma tumor samples. Malignant chromophobe RCC and benign oncocytoma share morphologic features. Results provide insight into the molecular differences between the two types of tumors. GDS3274.qdab
GDS3281 Tuberous sclerosis complex hamartomas Analysis of tuberous sclerosis complex (TSC) skin hamartomas (angiofibromas and periungual fibromas) with normal-appearing skin from the same patients. Hamartomas overgrow epithelial and mesenchymal cells in TSC skin. Results provide insight into the pathogenesis of TSC hamartomas. GDS3281.qdab
GDS3282 Liver transplantation tolerance: peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells from operationally tolerant liver transplant patients. Operationally tolerant patients are fully immunocompetent but accept grafts without chronic immunosuppression. Results identify a molecular signature for operational tolerance. GDS3282.qdab
GDS3283 Estradiol effect on breast cancer cell line: time course Analysis of MCF-7 breast cancer cells treated with estradiol for 3 or 6 hours. Results combined with ChIP experiments to identify estrogen receptor alpha binding sites and estradiol target genes in breast cancer cells. GDS3283.qdab
GDS3285 Estrogen effect on breast cancer cell line: time course Analysis of MCF-7 breast cancer cells treated with estrogen for up to 12 hours. Results used in conjunction with estrogen receptor and RNA polymerase II binding data to provide insight into the mechanisms underlying estrogen-regulated gene expression in breast cancer. GDS3285.qdab
GDS3289 Prostate cancer progression at the cellular level Analysis of LCM-captured epithelial cell populations representing prostate cancer progression from benign epithelium to metastatic disease. Stromal cell populations also examined. Results provide insight into molecular mechanisms underlying the different aspects of prostate cancer progression. GDS3289.qdab
GDS3290 Interleukin-6 effect on skeletal muscle tissue: time course Analysis of interleukin-6 (IL-6) infused skeletal muscle (SKM) biopsies at time points up to 6hr. IL-6, a cytokine secreted from skeletal muscle during exercise, works in both an autocrine and paracrine manner. Results provide insight into IL-6-induced expression of other secreted factors in SKM. GDS3290.qdab
GDS3291 Myelomonocytic lymphoma U937 cell line response to mild hyperthermia Analysis of myelomonocytic lymphoma U937 cells subjected to mild hyperthermia. Mild hyperthermia alone does not induce apoptosis but it does show a synergism with radiotherapy and anti-cancer drugs. Results provide insight into molecular mechanisms underlying cellular responses to mild hyperthermia. GDS3291.qdab
GDS3292 Preinvasive and invasive cervical squamous cell carcinomas Analysis of LCM-harvested high-grade squamous intraepithelial lesions (HSIL) and invasive squamous cell carcinomas (SCC) from cervices. If left untreated, a subset of the HSILs will progress to SCCs. Results provide insight into the molecular mechanisms underlying cervical cancer progression. GDS3292.qdab
GDS3297 Stage III serous ovarian adenocarcinomas Analysis of stage III ovarian serous papillary adenocarcinomas from 5-year survivors and deceased patients. Ovarian carcinoma is often not detected until an advanced stage. Results provide insight into gene expression patterns associated with survival that could have prognostic relevance. GDS3297.qdab
GDS3298 Peripheral blood monocyte response to Francisella tularensis infections Analysis of blood monocytes infected with Francisella tularensis tularensis Schu S4 (virulent) or subsp. novicida (less virulent). F. tularensis causes the disease tularemia. Results provide insight into the molecular mechanisms that enable Francisella to dampen or subvert the host immune response. GDS3298.qdab
GDS3300 SOX transcription factor overexpression in embryonic stem cells Analysis of CA1 and CA2 embryonic stem cell (ESC) lines over-expressing transcription factor SOX7 or SOX17, producing extraembryonic endoderm and definitive endoderm progenitors, respectively. Results provide insight into the roles of SOX7 and SOX17 as regulators of endoderm differentiation in ESCs. GDS3300.qdab
GDS3308 Cytogenetically normal acute myeloid leukemia_training set (HG-U133B) Analysis of mononuclear cells from bone marrow or peripheral blood from a training set of 163 adult patients with cytogenetically normal acute myeloid leukemia (CN-AML). Patients with CN-AML show heterogeneous treatment outcomes. Results provide insight into a prognostic gene signature for CN-AML. GDS3308.qdab
GDS3309 Cigarette smoking effect on the nasal epithelium Analysis of nasal epithelia from cigarette smokers. Cigarette smoke creates a field of injury in epithelial cells lining the respiratory tract. Results extend the concept of a smoking-induced field of injury beyond intrathoracic (bronchial) epithelia to extrathoracic epithelia that line the nose. GDS3309.qdab
GDS3312 Cytogenetically normal acute myeloid leukemia_training set (HG-U133A) Analysis of mononuclear cells from bone marrow or peripheral blood from a training set of 163 adult patients with cytogenetically normal acute myeloid leukemia (CN-AML). Patients with CN-AML show heterogeneous treatment outcomes. Results provide insight into a prognostic gene signature for CN-AML. GDS3312.qdab
GDS3313 Tibolone hormone effect on postmenopausal endometrium Comparison of endometria after short-term treatment with tibolone, estradiol (E2), or E2 + medroxyprogesterone acetate (E2 + MPA) in healthy postmenopausal women undergoing hysterectomy. A synthetic steroid, Tibolone is used as an alternative for estrogen or estrogen/progesterone hormone therapy. GDS3313.qdab
GDS3315 Estradiol effect on breast cancer cell line in the absence of protein synthesis Analysis of MCF-7 breast cancer cells treated with estradiol (E2) and cycloheximide, an inhibitor of protein synthesis (PS). Primary E2 targets are regulated by E2 in the absence of de novo PS. Results provide insight into mechanisms underlying primary and secondary E2 target gene regulation. GDS3315.qdab
GDS3318 Sickle cell disease: platelets Analysis of platelets from patients with sickle cell disease. Sickle cell disease patients exhibit increased activation of platelets. Results provide insight into the molecular basis of platelet dysfunction in sickle cell disease. GDS3318.qdab
GDS3324 Stromal cells and invasive breast cancer development Analysis of epithelium and stroma cells in normal and invasive breast cancer tissues. Information on the role that stroma tissues have on the growth and progression of cancer is limited.Results provide insights into the molecular basis of cancer invasion and metastasis. GDS3324.qdab
GDS3329 Cytogenetically normal acute myeloid leukemia_test set Analysis of mononuclear cells from bone marrow or peripheral blood from a test set of adult patients with cytogenetically normal acute myeloid leukemia (CN-AML). CN-AML patients show heterogeneous treatment outcomes. Results provide insight into the prognostic value of a gene signature for CN-AML. GDS3329.qdab
GDS3330 Methotrexate-resistant HT29 colon adenocarcinoma cell line Analysis of HT29 colon cancer cells sensitive or resistant to methotrexate (MTX). MTX is used in the treatment of cancer. Chemotherapy effectiveness in cancer cells is compromised by development of drug resistance. Results provide insight into molecular mechanisms associated with drug resistance. GDS3330.qdab
GDS3333 Porphyromonas gingivalis SerB mutant infection effect on immortalized gingival epithelial cells Analysis of immortalized gingival keratinocytes (HIGKs) infected with a Porphyromonas gingivalis SerB mutant strain. SerB mutants are deficient in internalization and survival in HIGKs. Results provide insight into the role of SerB in the interaction between P. gingivalis and HIGKs. GDS3333.qdab
GDS3342 Curcumin effect on oxidatively stressed monocyte cell line: time course Analysis of U937 monoctyes exposed to oxidative stress then treated for 4 or 18 hrs with curcumin, a dietary polyphenol. Curcumin restores oxidative stress impaired histone deacetylase-2 activity and corticosteroid efficacy in vitro. Results provide insight into the molecular basis of these effects. GDS3342.qdab
GDS3345 Various mental disorders: postmortem brains Analysis of postmortem prefrontal cortices from subjects with bipolar disorder, depression, and schizophrenia. Results provide insight into the molecular pathophysiology of these mental disorders. GDS3345.qdab
GDS3347 Type 2 diabetes: cultured myotubes Analysis of cultured myotubes from obese patients with type 2 diabetes. Cultured human myotubes display the morphological, metabolic and biochemical properties of adult skeletal muscle. Results provide insight into the molecular mechanisms underlying insulin resistance in skeletal muscle. GDS3347.qdab
GDS3356 Bronchopulmonary dysplasia: premature newborn umbilical cords Analysis of umbilical cord tissues from extremely low gestational age newborns, between 23 to 27 weeks gestational age, some of who subsequently developed the chronic lung disorder bronchopulmonary dysplasia (BPD). Results provide insight into the molecular mechanisms underlying BPD pathogenesis. GDS3356.qdab
GDS3360 Chlamydia pneumoniae infection effect on HL epithelial cells: time course Analysis of the HL epithelial cell line at various time points up to 72 hours following Chlamydia pneumoniae infection. C. pneumonia is a common cause of respiratory infections such as pneumonia. Results provide insight into host-cell phenomena that are affected at the different stages of infection. GDS3360.qdab
GDS3367 Argyrin A effect on MCF7 breast cancer cells: time course Temporal analysis of MCF7 breast adenocarcinoma cells treated with argyrin A, a proteasome inhibitor that induces apoptosis by stabilizing cyclin kinase inhibitor p27kip1. Results provide insight into the molecular mechanisms that make argyrin A-induced cell death dependent upon p27kip1 expression. GDS3367.qdab
GDS337 Telomerase overexpression Effect of overexpression of the telomerase catalytic subunit (TERT) in mammary epithelial cells (HMEC). Findings imply that ectopic telomerase expression modulates growth-controlling genes and enhances cell proliferation. GDS337.qdab
GDS3383 Chronic stress effect on peripheral blood monocytes Analysis of peripheral blood monocytes from individuals experiencing chronic stress due to being caregivers of family members with malignant brain cancer. Chronic stressors increase vulnerability to medical illness. Results provide insight into molecular mechanisms underlying this phenomenon. GDS3383.qdab
GDS3388 Bisphenol A effect on nonmalignant breast epithelial cell aspirates from breast cancer patients Analysis of random periareolar fine-needle aspirates collected from unafflicted, contralateral breast tissue of breast cancer patients and treated with bisphenol A (BPA). BPA is a prevalent xenoestrogen. Results provide insight into early molecular events induced by BPA in susceptible breast tissue. GDS3388.qdab
GDS3393 Bronchial epithelial cells response to interleukin-22 and interleukin-17 Analysis of bronchial epithelial cells treated with interleukin (IL)-22, IL-17, or both. IL-17 receptor mutant lungs are susceptible to Klebsiella pneumonia infections. IL-22 induces antimicrobial peptide expression. Results provide insight into the extent of IL-22 and IL-17's role in host defense. GDS3393.qdab
GDS3401 Two distinct isogenic mesenchymal stem/stromal cell populations from umbilical cord blood (HG-U133A) Comparison of UCB1 and UCB2 cells, two distinct isogenic mesenchymal stem/stromal cell (MSC) populations isolated from umbilical cord blood. UCB1 and UCB2 display phenotypic differences. Results provide insight into the molecular basis of the phenotypic heterogeneity among MSC populations. GDS3401.qdab
GDS3402 Two distinct isogenic mesenchymal stem/stromal cell populations from umbilical cord blood (HG-U133B) Comparison of UCB1 and UCB2 cells, two distinct isogenic mesenchymal stem/stromal cell (MSC) populations isolated from umbilical cord blood. UCB1 and UCB2 display phenotypic differences. Results provide insight into the molecular basis of the phenotypic heterogeneity among MSC populations. GDS3402.qdab
GDS3413 Homocysteine effect on aortic smooth muscle cells in vitro Analysis of cultured aortic smooth muscle cells grown for 14 days in the presence of 10 or 100 umol/L DL-homocysteine (Hcy). Elevated plasma levels of Hcy are a risk factor for atherosclerotic vascular disease. Results provide insight into the role of Hcy in atherosclerosis. GDS3413.qdab
GDS3416 Relaxation response practice effect on blood Analysis of whole blood from long-term practitioners of daily relaxation response (RR) practice and those with short-term (8 wks) RR training. RR is a mind-body intervention that offsets the physiological effects caused by stress. Results provide insight into molecular mechanisms underlying the RR. GDS3416.qdab
GDS3417 Untreated juvenile dermatomyositis muscle biopsies Analysis of skeletal muscle biopsies from untreated girls with active symptoms of juvenile dermatomyositis (JDM) less than 2 months or greater than 2 months. Results provide insight into the impact of the duration of chronic inflammation on gene expression in muscle of untreated children with JDM. GDS3417.qdab
GDS3423 Obese liver response to a short-term low-fat hypocaloric diet Analysis of livers from middle-aged obese women on a low-fat hypocaloric diet for 8 weeks. The diet resulted in a mean weight loss of 5% of body weight. Results provide insight into the effect of a hypocaloric diet on the liver at the molecular level. GDS3423.qdab
GDS3424 Conjugated linoleic acid isomers effect on intestinal cell line Analysis of intestinal Caco-2 cells treated with conjugated linoleic acid (CLA) isomer trans-10, cis-12 CLA or cis-9, trans-11 CLA. CLA exerts isomer-specific effects on transepithelial calcium transport and cell growth in Caco-2 cells. Results provide insight into molecular mechanisms of action. GDS3424.qdab
GDS3428 Immature dendritic cell response to butanol fraction of Echinacea purpurea: time course Analysis of immature dendritic cell lines (iDCs) treated with the butanol-fraction of stems and leaves of E. purpurea [BF/S+L/Ep] containing defined bioactive phytocompounds. Results provide insight into molecular mechanisms underlying the immune-modulatory activities induced by the phytocompounds. GDS3428.qdab
GDS3429 Azaspiracid-1 effect on T lymphocyte cell line: time course and dose response Analysis of T lymphocyte Jurkat cells treated with 1 or 10 nM azaspiracid-1 (AZA-1) for up to 24 hours. AZA-1 is a marine biotoxin reported to accumulate in shellfish and is associated with severe gastrointestinal intoxication. Results provide insight into the mechanism of action of AZA-1. GDS3429.qdab
GDS3432 Osteosarcoma cell line response to activation of specific glucocorticoid receptor alpha isoforms: time course Analysis of glucocorticoid receptor alpha (hGRalpha) isoform -A, -B, -C, or -D expressing osteosarcoma cells for up to 24 h after hGRalpha activation with dexomethasone. Cell apoptosis occurred in a GR isoform-selective manner. Results provide insight into the function of each isoform. GDS3432.qdab
GDS3433 Azaspiracid-1 effect on T lymphocyte cell line: time course Analysis of T lymphocyte Jurkat cells treated with 10 nM azaspiracid-1 (AZA-1) for up to 24 hours. AZA-1 is a marine biotoxin reported to accumulate in shellfish and is associated with severe gastrointestinal human intoxication. Results provide insight into the mechanism of action of AZA-1. GDS3433.qdab
GDS3434 Macaca mulatta model of Helicobacter pylori infection: time course Analysis of gastric mucosa from H. pylori specific pathogen free (SPF) rhesus monkeys infected with wildtype H. pylori strain J166 or its isogenic cag pathogenicity island (cag PAI) knockout mutant. Results provide insight into the role of cag PAI in the H. pylori host-pathogen interaction. GDS3434.qdab
GDS3439 Intralobular and interlobular mammary fibroblasts Comparison of intralobular and interlobular fibroblasts isolated from breast tissues. Intralobular fibroblasts surround mammary gland epithelial cells, and interlobular fibroblasts surround intralobular fibroblasts. Results provide insight into the differences between the two fibroblast subtypes. GDS3439.qdab
GDS3459 Frontotemporal lobar degeneration with ubiquitinated inclusions and progranulin mutations: various brain regions Analysis of various brain regions of patients who suffered from frontotemporal lobar degeneration with ubiquitinated inclusions (FTLD-U). Presence of progranulin (GRN) mutations determined. GRN mutations are associated with FTLD-U. Results identify expression signatures for GRN subtypes of FTLD-U. GDS3459.qdab
GDS3463 Sepsis effect on the skeletal muscle Analysis of muscle biopsies from septic patients treated in the intensive care unit. Septic patients often develop multiple organ failure including persistent skeletal muscle dysfunction. Results provide insight into the molecular defects driving loss of muscle function and metabolic homeostasis. GDS3463.qdab
GDS3467 Preeclampsia: first trimester placentas of pre-symptomatic women Analysis of first trimester placenta tissues obtained by chorionic villus sampling from women destined to develop preeclampsia. Preeclampsia is a cause of maternal, fetal, and neonatal morbidity and mortality. Results provide insight into the molecular pathogenesis of preeclampsia. GDS3467.qdab
GDS3469 Leukotriene D4 effect on monocytes Analysis of monocytes following stimulation with leukotriene D4 (LTD4), a cysteinyl leukotriene (CysLT). CysLTs are mediators of innate immune responsiveness and chronic inflammatory diseases. Results provide insight into the signaling pathways involved in monocyte activation by cysLTs. GDS3469.qdab
GDS3470 miR-122 overexpression effect on embryonic stem cells Analysis of embryonic stem cells (ESCs) overexpressing wild-type miR-122. miR-122 is an endoderm specific microRNA. Results provide insight into the role of miR-122 in the differentiation of ESCs. GDS3470.qdab
GDS3472 Barrett's esophagus Analysis of Barrett's esophagus (BE), normal esophageal, and small intestinal biopsies. In BE, normal esophageal squamous epithelium transdifferentiates into simple columnar epithelium resembling that of small intestine. Results provide insight into the molecular basis of this transdifferentiation. GDS3472.qdab
GDS3474 Limb girdle muscular dystrophy 2A (HG-U133A) Analysis of skeletal muscles from patients with limb girdle muscular dystrophy 2A (LGMD2A). LGMD2A is a recessive genetic disorder caused by mutations in calpain 3 (CAPN3). Results provide insight into the molecular pathogenesis of LGMD2A. GDS3474.qdab
GDS3475 Limb girdle muscular dystrophy 2A (HG-U133B) Analysis of skeletal muscles from patients with limb girdle muscular dystrophy 2A (LGMD2A). LGMD2A is a recessive genetic disorder caused by mutations in calpain 3 (CAPN3). Results provide insight into the molecular pathogenesis of LGMD2A. GDS3475.qdab
GDS3481 NOR1 gene and EWS/NOR1 fusion gene overexpression Analysis of cells overexpressing NOR1 or the EWS/NOR1 fusion gene. NOR1 encodes an orphan nuclear receptor. The EWS gene is involved in various malignancies by way of chromosomal translocations, and the EWS/NOR1 gene fusion is implicated in the pathogenesis of extraskeletal myxoid chondrosarcomas. GDS3481.qdab
GDS3482 X-linked inhibitor of apoptosis XIAP depletion effect on a colorectal cancer cell line Analysis of early and late passage HCT116 colon cancer cells depleted for X-linked inhibitor of apoptosis (XIAP). XIAP is overexpressed in the majority of NCI 60 cell lines compared to normal cells suggesting a potential role as a therapeutic target in a wide spectrum of malignancies. GDS3482.qdab
GDS3484 Insulin-like growth factor-I effect on breast cancer cell line: time course Analysis of breast cancer MCF-7 cells stimulated with insulin-like growth factor-I (IGF-I) for 3 or 24 hours. High serum IGF-I levels are associated with an elevated risk of breast cancer. Results provide insight into the role of IGF-1 in the development and progression of breast cancer. GDS3484.qdab
GDS3487 Transcription factor CREB depletion effect on myeloid leukemic cell line Analysis of myeloid leukemia K562 cells depleted for cAMP Response Element Binding Protein (CREB), a transcription factor. CREB is overexpressed in bone marrow samples of patients with acute leukemia. Results provides insight into the molecular mechanisms by which CREB contributes to acute leukemia. GDS3487.qdab
GDS3489 CD133 depletion effect on metastatic melanoma cell line Analysis of metastatic melanoma FEMX-I cells depleted for CD133. CD133 is a cancer stem cell-associated antigen expressed in many malignancies such as melanoma. Results provide insight into the role of CD133 in cancer progression. GDS3489.qdab
GDS3492 Senescent activated hepatic stellate cells Analysis of activated hepatic stellate cells (HSCs) induced to senesce by treatment with a DNA-damaging agent. Upon activation in response to liver damage, HSCs proliferate and produce the extracellular matrix deposited in the fibrotic scar. Senescence of activated HSCs limits liver fibrosis. GDS3492.qdab
GDS3493 Cigarette smoke of full flavor brand effect on bronchial epithelial cells in vitro: time course Analysis of normal bronchial epithelial cells exposed to cigarette smoke from a typical full flavor brand for up to 24 hours. Results provide insight into the impact of cigarette smoke exposure at the molecular level. GDS3493.qdab
GDS3494 Cigarette smoke of light flavor brand effect on bronchial epithelial cells in vitro: time course Analysis of normal bronchial epithelial cells exposed to cigarette smoke from a typical light flavor brand for up to 24 hours. Results provide insight into the impact of cigarette smoke exposure at the molecular level. GDS3494.qdab
GDS3495 Progerin expression in a hTERT-immortalized skin fibroblast cell line: time course Analysis of skin fibroblasts induced to express GFP-progerin for up to 10 days. Progerin is a mutant form of lamin A and the causal agent of premature-ageing disease Hutchinson-Gilford Progeria Syndrome (HGPS). Results provide insight into molecular mechanisms underlying this pathological effect. GDS3495.qdab
GDS3496 Alveolar macrophages of cigarette smokers Analysis of alveolar macrophages from cigarette smokers. Cigarette smoking is associated with increased lung cell turnover. Mononuclear phagocytes, such as macrophages, play an important role in the removal of apoptotic cells. GDS3496.qdab
GDS3497 Interleukin-12 effect on peripheral blood mononuclear cells (HG-U133A) Analysis of cultured peripheral blood mononuclear cells (PBMCs) stimulated with interleukin-12 (IL-12). PBMCs obtained from 7 donors. IL-12 plays a central role in adaptive and innate immunity. Results provide further insight into the effects of IL-12 on the immune response. GDS3497.qdab
GDS3498 Interleukin-12 effect on peripheral blood mononuclear cells (HG-U133B) Analysis of cultured peripheral blood mononuclear cells (PBMCs) stimulated with interleukin-12 (IL-12). PBMCs obtained from 7 donors. IL-12 plays a central role in adaptive and innate immunity. Results provide further insight into the effects of IL-12 on the immune response. GDS3498.qdab
GDS3499 TREM-1 activation effect on monocytes in vitro Analysis of cultured monocytes following TREM-1 activation by treatment with an antibody against TREM-1. TREM-1 is an immunoreceptor expressed on monocytes, macrophages, and neutrophils. Results provide insight into the cellular consequences of TREM-1 activation. GDS3499.qdab
GDS3500 Cryptosporidium infection effect on intestinal epithelial cells in vitro Analysis of cultured intestinal epithelial cells infected with Cryptosporidium hominis or parvum. Cryptosporidium parasites are pathogens of human intestinal epithelial cells. Results provide insight into the early pathogenesis of Cryptosporidium infection. GDS3500.qdab
GDS3501 Synchronous and metachronous liver metastases from colorectal cancer Analysis of synchronous and metachronous liver metastatic lesions from colorectal cancer (CC). The liver is a common site of metastases from CC. Synchronous metastatic lesions arise less than 6 months after the resection of the primary tumor, metachronous lesions arise 6 months after resection. GDS3501.qdab
GDS3510 Claudin-1 overexpression effect on lung adenocarcinoma cell line Analysis of lung adenocarcinoma CL1-5 cells overexpressing Claudin-1 (CLDN1), a component of tight junction complexes. Low CLDN1 expression in lung adenocarcinomas is associated with shorter overall survival. Results provide insight into the role of CLDN1 in the progression of lung adenocarcinoma. GDS3510.qdab
GDS3511 HIV-1 infection effect on macrophages in vitro: time course Analysis of cultured macrophages for up to 7 days after HIV-1 infection. Macrophages are targets of HIV-1 infection and constitute a viral reservoir that facilitates the spread of HIV-1 to other cells. Results provide insight into the signaling networks affected by HIV-1 infection in macrophages. GDS3511.qdab
GDS3513 Embryonic stem cell-derived cardiomyocytes Analysis of cardiomyocytes (CMs) derived from embryonic stem cells (ESCs). Under the appropriate conditions, ex vivo ESCs can differentiate into beating cardiomyocytes via an embryoid body (EB) intermediate. Results provide insight into the mechanisms underlying the differentiation of ESC into CMs. GDS3513.qdab
GDS3514 Liposarcoma response to doxorubicin in vitro Analysis of various types of liposarcomas treated with doxorubicin in vitro. While doxorubicin is an established chemotherapeutic for treating liposarcomas, the response to this drug is low. Results provide insight into the molecular basis of the resistance of liposarcomas to doxorubicin. GDS3514.qdab
GDS3516 Nodular lymphocyte-predominant Hodgkin lymphoma: lymphocytic and histiocytic cells Analysis of neoplastic lymphocytic and histiocytic cells (L&H) dissected from nodular lymphocyte-predominant Hodgkin lymphoma tumors (NLPHL). L&H cells represent less than 1 percent of cells in NLPHL tumors. Results provide insight into the pathogenesis of NLPHL. GDS3516.qdab
GDS3517 Oncogenic NRAS depletion effect on melanoma cell lines: time course Analysis of melanoma 224 and BL cells for up to 3 days after suppression of the mutant NRAS Q61R gene with siRNA siMut10 or siMut12. Activating mutations in NRAS gene is a common genetic event in malignant melanoma. Results provide insight into the role of NRAS in the pathogenesis of melanoma. GDS3517.qdab
GDS3518 Chronic myelogenous leukemia response to imatinib: Philadelphia chromosome positive CD34+ cells Analysis of Philadelphia chromosome-positive CD34+ cells of chronic myelogenous leukemia patients treated with imatinib. The anti-cancer drug imatinib is a selective bcr-abl tyrosine kinase inhibitor. Results provide insight into the molecular events affected by bcr-abl inhibition through imatinib. GDS3518.qdab
GDS3523 Non-migratory villous cytotrophoblasts and invasive extra-villous trophoblasts Comparison of non-migratory villous cytotrophoblasts (CTBs) and invasive extra-villous trophoblasts. Invasion of CTBs into uterine tissues is essential for placental development. Results provide insight into the molecular mechanisms regulating trophoblast invasion. GDS3523.qdab
GDS3524 Hypoxia effect on a renal proximal tubule epithelial cell line Analysis of cultured renal proximal tubule epithelial RPTEC cells subjected to hypoxia at 1% oxygen for 24 hours. Results identify hypoxia-controlled genes in epithelial cells. GDS3524.qdab
GDS3525 Ovarian cancer and depression Analysis of primary ovarian tumors from patients with high depressive symptoms. Results provide insight into the contribution of biobehavioral factors such as such as stress, depression, and social support to the molecular progression of cancer. GDS3525.qdab
GDS3531 PGC-1-related coactivator partial depletion Analysis of U2OS cells partially depleted for the PGC-1-related coactivator PRC. Loss of PRC results in a severe reduction in respiratory energy production, the proliferation of structurally defective mitochondria, and a defect in cell cycle progression. GDS3531.qdab
GDS3532 PGC-1-related coactivator depletion Analysis of U2OS cells nearly completely depleted for the PGC-1-related coactivator PRC. Loss of PRC results in a severe reduction in respiratory energy production, the proliferation of structurally defective mitochondria, and a defect in cell cycle progression. GDS3532.qdab
GDS3534 Lymphatic endothelial cell response to Prox1 and NR2F2 depletion Analysis of lymphatic endothelial cells (LECs) depleted for Prox1, NR2F2, or both regulators. LECs are derived from venous endothelial cells (VECs). Prox1 and NR2F2 regulate LEC and VEC development, respectively. Results provide insight into the role of NR2F2 and Prox1 in maintaining LEC phenotypes. GDS3534.qdab
GDS3537 Polybrominated diphenyl ethers effect on adrenocortical carcinoma cell line Analysis of H295R adrenocortical carcinoma cells treated with the hydroxylated polybrominated biphenyl ether (PBDE) 2-OH-BDE47 or 2-OH-BDE85. PBDEs are used as flame retardants in various products. The two PBDEs are cytotoxic. Results provide insight into the molecular basis of PBDE cytotoxicity. GDS3537.qdab
GDS3539 Psoriasis Analysis of lesional and non-lesional skins from patients with psoriasis. Psoriasis is an immune-mediated disease characterized by aberrant epidermal differentiation, surface scale formation, and marked cutaneous inflammation. Results provide insight into the molecular pathogenesis of psoriasis. GDS3539.qdab
GDS3553 Monocytes and macrophages (RNG/MRC) Comparison of monocytes and macrophages. Samples obtained from 86 patients with acute coronary syndrome. Results used as a reference to compare the performance of Affymetrix (GDS3554) and Illumina (GDS3555) arrays. GDS3553.qdab
GDS3554 Monocytes and macrophages (Affymetrix) Comparison of monocytes and macrophages. Samples obtained from patients with acute coronary syndrome. Results compared to the performance of Illumina arrays (GDS3555). The result from two-color arrays (GDS3553) was used as a reference for the Illumina and Affymetrix arrays. GDS3554.qdab
GDS3555 Monocytes and macrophages (Illumina) Comparison of monocytes and macrophages. Samples obtained from patients with acute coronary syndrome. Results compared to the performance of Affymetrix arrays (GDS3554). The result from two-color arrays (GDS3553) was used as a reference for the Illumina and Affymetrix arrays. GDS3555.qdab
GDS3556 Torcetrapib effect on adrenal carcinoma cell line Analysis of H295 adrenal carcinoma cells treated with torcetrapib, an anti-cholesterol drug. Adverse side effects of torcetrapib treatment include changes in blood pressure, potassium, sodium, and aldosterone. Results provide insight into the molecular basis of the off-target side effects. GDS3556.qdab
GDS3557 ERG transcription factor depletion effect on endothelial cell Analysis of endothelial HUVEC cells depleted for the ETS-related gene (ERG) product. ERG is a member of the ETS family of transcription factors. Results provide insight into the role of ERG in the regulation of normal endothelial cell function. GDS3557.qdab
GDS3558 Deferasirox effect on leukemia cell line: dose response Analysis of leukemia K562 cells treated with 10 or 50 uM deferasirox. Deferasirox is an iron chelator taken orally to treat iron toxicity. Iron depletion by deferasirox inhibits cancer cell proliferation in vitro. Results provide insight into the molecular basis of this anti-proliferative effect. GDS3558.qdab
GDS3559 Occupational benzene exposure: peripheral blood mononuclear cells (HG-U133A) Analysis of peripheral blood mononuclear cells from shoe factory workers exposed to benzene. Benzene is a leukemogen. Results provide insight into molecular mechanisms of benzene carcinogenicity. GDS3559.qdab
GDS3560 Occupational benzene exposure: peripheral blood mononuclear cells (HG-U133B) Analysis of peripheral blood mononuclear cells from shoe factory workers exposed to benzene. Benzene is a leukemogen. Results provide insight into molecular mechanisms of benzene carcinogenicity. GDS3560.qdab
GDS3561 Occupational benzene exposure: peripheral blood mononuclear cells (HumanRef-8) Analysis of peripheral blood mononuclear cells from shoe factory workers exposed to benzene. Benzene is a leukemogen. Results provide insight into molecular mechanisms of benzene carcinogenicity. GDS3561.qdab
GDS3567 VEGF-A effect on endothelial cell line: time course (HG-U133 Plus 2.0) Analysis of umbilical vein endothelial cells (HUVEC) treated with VEGF-A for up to 150 minutes in vitro. VEGF-A is a major trigger of vasculogenesis and physiologic angiogenesis. Results provide insight into the molecular mechanisms underlying the vasculogenic and angiogenic activity of VEGF-A. GDS3567.qdab
GDS3568 VEGF-A effect on endothelial cell line: time course (HG-U133A) Analysis of umbilical vein endothelial cells (HUVEC) treated with VEGF-A or EGF for up to 6 hours. VEGF-A is a major trigger of vasculogenesis and angiogenesis. EGF is a general growth factor. Results provide insight into the mechanisms underlying the vasculogenic and angiogenic activity of VEGF-A. GDS3568.qdab
GDS3570 VEGF-A effect on endothelial cell line: time course (HG-U133B) Analysis of umbilical vein endothelial cells (HUVEC) treated with VEGF-A for up to 6 hours in vitro. VEGF-A is a major trigger of vasculogenesis and physiologic angiogenesis. Results provide insight into the molecular mechanisms underlying the vasculogenic and angiogenic activity of VEGF-A. GDS3570.qdab
GDS3571 Jag1 expression effect on endometrial stromal cells Analysis of endometrial stromal cells engineered to have an increased expression of Jag1. Jag1 is a Notch ligand. Results provide insight into the role of Notch signaling in endometrial cells. GDS3571.qdab
GDS3573 Chlamydia pneumonia infection effect on dendritic cells Analysis of monocyte-derived dendritic cells infected with Chlamydia pneumonia. C. pneumonia is a human respiratory pathogen associated with various chronic diseases such as asthma and atherosclerosis. Results provide insight into the host defense response to C. pneumonia infections. GDS3573.qdab
GDS3576 Diamond-Blackfan anaemia: fibroblasts Analysis of fibroblasts from patients with Diamond-Blackfan anaemia (DBA). DBA is a rare inherited red cell hypoplasia characterized by a defect in the maturation of erythroid progenitors. Results provide insight into the involvement of non-hematopoietic tissues in DBA pathogenesis. GDS3576.qdab
GDS3578 Beta-catenin depletion effect on multiple myeloma cell line Analysis of multiple myeloma MM1.S cells depleted for beta-catenin. Beta-catenin is an effector of the Wnt signaling pathway. Results provide insight into the role of Wnt/beta-catenin signaling in the progression of multiple myeloma. GDS3578.qdab
GDS3580 Pulmonary sarcoidosis Analysis of lungs from patients with pulmonary sarcoidosis (PS). PS is characterized by the granulomatous inflammation of the lung. Results provide insight into the molecular pathogenesis of PS. GDS3580.qdab
GDS3581 Anti-mitotic compound MT7 effect on immortalized cell line: time course Analysis of HeLa cells treated for up to 12 hrs with MT7, an anti-mitotic compound from a combinatorial library. MT7 inhibits cell proliferation by arresting mitosis specifically and reversibly in various tumor cell lines of human origin. Results provide insight into the mechanism of action of MT7. GDS3581.qdab
GDS358 Leprosy lesions Molecular characterization of lepromatous leprosy (LL) and borderline tuberculoid (BT) leprosy skin lesions. GDS358.qdab
GDS3592 Ovarian normal surface epithelia and ovarian cancer epithelial cells Comparison of normal ovarian surface epithelia (OSE) and ovarian cancer epithelial cells (CEPIs). CEPIs were isolated by laser capture microdissection from serous papillary ovarian adenocarcinomas. Results provide insight into the role of OSE in the development of ovarian adenocarcinoma. GDS3592.qdab
GDS3595 Macrophage response to H1N1 and H5N1 influenza viral infections Analysis of macrophages at 1, 3, and 6 hours post-infection with H1N1 or H5N1 viruses in vitro. The avian H5N1 virus is highly pathogenic, while the swine H1N1 virus is less so. Alveolar macrophages are targets of H5N1. Results provide insight into the host response to H1N1 and H5N1 infections. GDS3595.qdab
GDS359 Glaucoma and aqueous humor outflow Glaucoma study investigating molecular basis of increase in aqueous humor outflow when human ciliary muscle or human trabecular meshwork cells are treated with prostaglandin analogs latanoprost free acid or prostaglandin F2alpha. GDS359.qdab
GDS3600 Endothelial cell response to estradiol in vitro Analysis of cultured umbilical vein endothelial cells treated with 1 nmol/L estradiol for 24 hours. The incidence of coronary heart disease in women increases after menopause. Results provide insight into the response of the cardiovascular system to estrogens at the molecular level. GDS3600.qdab
GDS3601 Obesity: adipocyte expression profile (HG-U95A) Analysis of cultured abdominal subcutaneous mature adipocytes from 4 male and 5 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of adipocytes in obesity and obesity-related inflammation. GDS3601.qdab
GDS3602 Obesity: adipocyte expression profile (HG-U95Av2) Analysis of cultured abdominal subcutaneous mature adipocytes from 5 male and 5 female non-diabetic obese Pima Indians. The prevalence of obesity in Pima Indians is among the highest of any population. Results provide insight into the role of adipocytes in obesity and obesity-related inflammation. GDS3602.qdab
GDS3603 Renal cancer response to rapamycin analog CCI-779 treatment: Expression profiling of peripheral blood mononuclear cells (PBMC) from patients with advanced renal cancer following treatment with the rapamycin analog CCI-779. Gene expression examined 8 and 16 weeks after treatment. Results identify potential gene markers of CCI-779 exposure. GDS3603.qdab
GDS3604 Tamoxifen effect on endometrioid carcinomas Analysis of endometrial epithelial cells from stage I or II endometrioid carcinomas after treatment with oestrogen or tamoxifen (TMX). Results provide insight into the molecular basis of the association of TMX treatment of breast cancer with an increased incidence of endometrial cancer. GDS3604.qdab
GDS3606 Myeloid leukemia cell response to thrombopoietin receptor agonist SB-559457 in vitro Analysis of primary cultured myeloid leukemia cells treated with recombinant human thrombopoietin or the thrombopoietin receptor agonist SB-559457 (SB). SB is toxic to leukemia cells. Results provide insight into the mechanism of action of SB. GDS3606.qdab
GDS3609 Syk depletion effect on breast epithelial cell line Analysis of MCF10A breast epithelial cells depleted for Syk. Progressive loss of Syk mRNA occurs during breast tumor development. Results provide insight into Syk’s tumor suppressor function and role in normal breast development. GDS3609.qdab
GDS360 Breast cancer and docetaxel treatment Breast cancer core biopsies taken from patients found to be resistant (greater than 25% residual tumor volume) or sensitive (less than 25% residual tumor volume) to docetaxel treatment. GDS360.qdab
GDS3610 Nasopharyngeal carcinoma Analysis of biopsies from patients with Epstein-Barr virus (EBV)-positive undifferentiated nasopharyngeal carcinoma (NPC). NPC is a common cancer in China and Southeast Asia. Results provide insight into the molecular pathogenesis of NPC. GDS3610.qdab
GDS3615 Asthma exacerbation and convalescent phases: peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells of children with acute asthma during exacerbation and at subsequent convalescence. Severe asthma exacerbations in children are associated with viral infection and occur among atopics. Results provide insight into the significance of these comorbidities. GDS3615.qdab
GDS3626 Macrophage migration inhibitory factor depletion effect on kidney cell line Analysis of HEK293 kidney cells depleted for the macrophage migration inhibitory factor (MIF). MIF depletion in HEK293 cells result in G(0)/G(1) cell cycle arrest. Results provide insight into the molecular mechanisms underlying this cell cycle arrest. GDS3626.qdab
GDS3627 Non-small lung cancer subtypes: adenocarcinoma and squamous cell carcinoma Comparison of two non-small cell lung cancer histological subtypes: adenocarcinomas (AC) and squamous cell carcinomas (SCC). Results provide insight into the molecular differences between AC and SCC. GDS3627.qdab
GDS3628 Rheumatoid arthritis and response to anti-TNF alpha therapy: blood Analysis of whole blood from rheumatoid arthritis patients at baseline of infliximab therapy. Infliximab is an anti-TNF alpha antibody. Clinical response to infliximab determined at week 14 of therapy. Results identify a gene expression signature for predicting the response to infliximab. GDS3628.qdab
GDS3630 Monozygotic and dizygotic twin pairs: intestinal mucosa Analysis of healthy intestinal mucosa biopsies from 10 monozygotic and 10 dizygotic twin pairs. Barrier organs such as the gut are exposed to continual environmental challenge. Results provide insight into genetic and non-genetic determinants of gene expression. GDS3630.qdab
GDS3631 Asthma and socioeconomic status: peripheral blood CD2+ leukocyte Analysis of peripheral blood CD2+ leukocytes from asthmatic children of low and high socioeconomic families. Low socioeconomic status is a social factor associated with disease morbidity, including more severe asthma in childhood. Results provide insight into the molecular basis of this link. GDS3631.qdab
GDS3634 miR-205 expression effect on prostate cancer cell line Analysis of DU145 prostate cancer cells with restored miR-205 expression. miR-205 expression is lower in prostate cancer cell lines than in normal cell lines, as well as in prostate tumors than in matched normal prostate tissues. Results provide insight into the role of miR-205 in prostate cancer. GDS3634.qdab
GDS3635 Vitamin C effect on skin fibroblast cell line Analysis of GM5659 skin fibroblasts treated with ascorbic acid or the stable vitamin C derivative, ascorbic acid 2-phosphate. Vitamin C is an important water-soluble free radical scavenger and an essential cofactor for collagen synthesis by dermal fibroblasts. GDS3635.qdab
GDS3638 Actein effect on breast cancer cell line: dose response and time course Analysis of MDB-MB-453 breast cancer cells treated with 20 or 40 ug/ml actein for 6 or 24 hours. Actein is a triterpene glycoside from the herb black cohosh and inhibits the growth of cancer cells in vitro. Results provide insight into the molecular basis of this inhibitory effect. GDS3638.qdab
GDS3640 Copper effect on liver cell line: dose response and time course Analysis of HepG2 liver cells treated with up to 600 uM copper sulfate for up to 24 hours. Copper is an essential trace element but can be extremely toxic at supraphysiological levels. Results provide insight into the molecular basis of copper toxicity. GDS3640.qdab
GDS3644 Cerebral palsy: wrist muscles Analysis of wrist muscle extensors and flexors of cerebral palsy (CP) patients. CP is an upper motor neuron disease that results in a progressive movement disorder. Muscles of CP patients often become spastic. Results provide insight into the molecular alterations in spastic muscles of CP patients. GDS3644.qdab
GDS3646 Celiac disease: primary leukocytes Expression analysis of untouched primary leukocytes from unrelated celiac disease individuals. Results used in conjunction with genome-wide association genotype data provide insight into genetic variation effects on gene expression in primary leukocytes from an immune-mediated disease. GDS3646.qdab
GDS3649 Proinsulin C-peptide and TGF-beta 1 effect on proximal tubular cell line: time course Analysis of HK2 proximal tubular cells (PTCs) treated with C-peptide, TBF-beta 1, or both agents for 18 or 48 hours. C-peptide alleviates TGF-beta 1-mediated phenotypic and morphological changes in PTCs associated with epithelial-mesenchymal transformation (EMT). EMT contributes to renal fibrosis. GDS3649.qdab
GDS3656 Folic acid effect on endothelial progenitor cells of type 1 diabetes patients Analysis of endothelial progenitor cells (EPCs) from patients with type 1 diabetes (T1D) before and 4 weeks of dietary folic acid (FA) supplementation. EPCs are involved in vascular wall repair. T1D results in reduced circulating EPCs. Results provide insight into the effect of FA on EPC function. GDS3656.qdab
GDS3658 Coronary collateral artery growth: monocytes Analysis of monocytes from patients with chronic coronary occlusions who were dichotomized as sufficient or insufficient collateral responders following coronary intervention. Results of in vitro stimulation of monocytes with LPS provide insight into the role of IFN-beta in collateral artery growth. GDS3658.qdab
GDS3665 Visceral adipose tissues of obese diabetic women Analysis of visceral adipose omentum tissues of obese women with type 2 diabetes mellitus. Age and BMI-matched glucose-tolerant women used as controls. GDS3665.qdab
GDS3668 Familial hypercholesterolemia and atherosclerosis: monocytes Analysis of monocytes (MO) from familial hypercholesterolemia (FH) patients. FH patients have a defective or missing LDLR resulting in atherosclerosis. Atherosclerotic lesions often contain MO-derived, lipid-laden macrophages. Results provide insight into the role of MO in onset of atherosclerosis. GDS3668.qdab
GDS3669 Familial hypercholesterolemia and atherosclerosis: T lymphocytes Analysis of T cells from familial hypercholesterolemia (FH) patients. FH patients have a defective or missing LDLR resulting in atherosclerosis. In response to initial events of atherosclerosis, T cells interact with vessel wall. Results provide insight into the role of T cells in atherosclerosis. GDS3669.qdab
GDS3676 Quercetin effect on CD14+ monocyte Analysis of CD14+ monocytes from individuals on a diet supplemented with quercetin for 2 weeks. Quercetin is a flavonoid from plant extracts used as a nutritional supplement, and has reported benefits ranging from anti-carcinogenic properties to reduced risk of cardiovascular disease. GDS3676.qdab
GDS3678 Saturated fatty acid rich diet effect on risk of metabolic syndrome: adipose tissue Analysis of adipose tissue from moderately overweight subjects who consumed a saturated fat (SFA)-rich diet for 2 weeks, followed by SFA or monounsaturated (MUFA)-rich intervention diets for 8 weeks. Results provide insight into role of dietary fat on the risk of developing metabolic syndrome. GDS3678.qdab
GDS3679 Morbid obesity: subcutaneous and omental adipose tissues Analysis of SC and OM adipose tissue collected from morbidly obese patients. Patients grouped as Low or High Acylation Stimulating protein (ASP) and Triglyceride (TG). ASP is associated with various metabolic disorders. Results provide insight into molecular basis of the two ASP-TG lipemic indices. GDS3679.qdab
GDS367 Skeletal repair in non-union fractures (HG-U95A) Identification of mechanisms leading to lack of skeletal repair in non-union fractures. Non-union fractures do not heal six months after injury and may cause advanced arthritis or loss of limb function. Normal and non-union callous bone samples examined. GDS367.qdab
GDS3681 Type 2 diabetes: myotube Analysis of myotube cell lines established from type 2 diabetes (T2D) subjects. Insulin resistance and reduced mitochondrial biogenesis coexist early in T2D pathogenesis independent of hyperglycemia and obesity. Results provide insight into the effect of T2D on developing skeletal muscle cells. GDS3681.qdab
GDS3686 Colony stimulating factor 1 effect on monocyte derived macrophage Analysis of mature monocyte derived macrophages treated with colony stimulating factor 1 (CSF-1) in vitro for 6 hours. CSF-1 supports the proliferation and differentiation of monocytes and macrophages. Results provide insight into the effect of CSF-1 stimulation on mature monocytes. GDS3686.qdab
GDS368 Skeletal repair in non-union fractures (HG-U95B) Identification of mechanisms leading to lack of skeletal repair in non-union fractures. Non-union fractures do not heal six months after injury and may cause advanced arthritis or loss of limb function. Normal and non-union callous bone samples examined. GDS368.qdab
GDS3690 Atherosclerotic Coronary Artery Disease: circulating mononuclear cell types Analysis of various mononuclear cells from patients with severe triple-vessel coronary artery disease (CAD). CD34+ stem cells, CD4+ T-helper cells, CD14+ resting monocytes, LPS-stimulated monocytes, and macrophages were examined. Results provide insight into the pathophysiology of atherosclerosis. GDS3690.qdab
GDS3691 Sustained olive oil consumption effect on peripheral blood mononuclear cells Analysis of PBMCs from healthy males after 3 weeks of virgin olive oil (VOO) consumption at doses common in the Mediterranean diet. The Mediterranean diet protects against cardiovascular diseases. Results provide insight into the molecular mechanisms underlying the beneficial action of VOO. GDS3691.qdab
GDS3694 Skeletal muscles of diet sensitive and resistant individuals after completion of a weight loss program Analysis of skeletal muscle from obese diet sensitive and resistant women after completion of a weight loss program. Subjects are in the highest and lowest quintiles for weight loss rate. Results provide insight into the molecular basis of the variability in weight loss during caloric restriction. GDS3694.qdab
GDS3696 Atherosclerotic left anterior descendent coronary artery: low scan Analysis of 8 atherosclerotic LAD coronaries presenting at least 75% stenosis and calcified plaques. Atherosclerosis affects aorta, coronary, carotid, and iliac arteries more frequently than any other vessel. Results provide insight into molecular networks underlying the atherosclerotic condition. GDS3696.qdab
GDS3697 Atherosclerotic left anterior descendent coronary artery: medium scan Analysis of 8 atherosclerotic LAD coronaries presenting at least 75% stenosis and calcified plaques. Atherosclerosis affects aorta, coronary, carotid, and iliac arteries more frequently than any other vessel. Results provide insight into molecular networks underlying the atherosclerotic condition. GDS3697.qdab
GDS3698 Atherosclerotic left anterior descendent coronary artery: high scan Analysis of 8 atherosclerotic LAD coronaries presenting at least 75% stenosis and calcified plaques. Atherosclerosis affects aorta, coronary, carotid, and iliac arteries more frequently than any other vessel. Results provide insight into molecular networks underlying the atherosclerotic condition. GDS3698.qdab
GDS369 Skeletal repair in non-union fractures (HG-U95C) Identification of mechanisms leading to lack of skeletal repair in non-union fractures. Non-union fractures do not heal six months after injury and may cause advanced arthritis or loss of limb function. Normal and non-union callous bone samples examined. GDS369.qdab
GDS3704 Dietary polyunsaturated and saturated fatty acids effect on peripheral blood mononuclear cells Analysis of peripheral blood mononuclear cells of individuals before and 6 hours after the consumption of shakes containing either mainly polyunsanturated (PUFA) or saturated fatty acids (SFA). Results provide insight into the molecular basis of the beneficial effect of PUFA on health. GDS3704.qdab
GDS3705 Progressive pulmonary sarcoidosis Comparison of lungs from patients with nodular self-limiting pulmonary sarcoidosis (PS) to those with progressive fibrotic PS. About 60-70% of patients with PS have disease that resolves spontaneously, the rest follow a chronic course. Results provide insight into the pathogenesis of progressive PS. GDS3705.qdab
GDS3706 Benzo[a]pyrene diol epoxide effect on lung WI-38 fibroblasts: dose-response Analysis of normal lung WI-38 fibroblasts exposed to various concentrations of the carcinogen benzo[a]pyrene diol epoxide (BPDE). BPDE is a metabolite of benzo[a]pyrene, a component of cigarette smoke. Results provide insight into the molecular response of normal lung fibroblasts to BPDE. GDS3706.qdab
GDS3709 Cigarette smoke effect on the oral mucosa Analysis of oral mucosae from 40 cigarette smokers and 40 age and gender matched never-smokers. Results provide insight into the carcinogenic effects of cigarette smoke. GDS3709.qdab
GDS3710 TGF-beta-induced epithelial-mesenchymal transition model Analysis of A549 epithelial cells treated for up to 72 hours with TGF-beta to induce epithelial-mesenchymal transition (EMT). EMT is a developmental process that facilitates the dispersion of cells. A similar process is reactivated in cancer cells as an early event during tumor metastasis. GDS3710.qdab
GDS3711 Asthmatic atopic epithelium Analysis of airway epithelial cells (AEC) from children with asthma and healthy non-atopic controls. Epithelial cells from asthmatic children fail to heal a wound in vitro. Results provide insight into the molecular mechanisms underlying dysregulated AEC repair. GDS3711.qdab
GDS3715 Insulin effect on skeletal muscle Analysis of vastus lateralis muscle biopsies from insulin-sensitive subjects, insulin-resistant subjects, and diabetic patients, following insulin treatment. Results provide insight into the molecular basis of insulin action in skeletal muscle and the underlying defects causing insulin resistance. GDS3715.qdab
GDS3716 Breast cancer: histologically normal breast epithelium Analysis of histological normal breast epithelia from both ER- and ER+ breast cancer patients and prophylactic mastectomy patients, and normal breast epithelia from reduction mammoplasty patients. Results provide insight into the mechanisms underlying breast cancer initiation and progression. GDS3716.qdab
GDS3717 NOTCH antagonist SAHM1 effect on T-ALL cell lines Analysis of HPB-ALL and KOPT-K1 cells treated with SAHM1, an antagonist of the NOTCH transcription factor. SAHM1 is an alpha-helical hydrocarbon stapled peptide derived from MAML1. Results provide insight into the specificity of the antagonistic effect of SAHM1 on gene expression driven by NOTCH. GDS3717.qdab
GDS386 Arthritis synoviocyte response to TNF alpha Temporal analysis of arthritic synovial biopsies treated with TNF alpha at 0, 4 and 24 hours. GDS386.qdab
GDS390 Idiopathic thrombocytopenic purpura Idiopathic thrombocytopenic purpura (ITP) is an autoimmune hematologic disorder. CD3+ cells were studied in duplicate from healthy controls, patients with active ITP and patients with ITP in remission. GDS390.qdab
GDS395 Biomaterial engineering Temporal gene expression analysis of fetal lung fibroblast cell line IMR-90 seeded onto collagen/chondroitin sulfate tissue engineering scaffold mesh material. Integration of genomic information with biomaterial engineering. GDS395.qdab
GDS400 DNA damage and UV radiation Temporal analysis of differences in WS1 human skin fibroblast gene expression response to low (10 J/m2; induces transient cellular replicative arrest) or high (50 J/m2; induces apoptosis) doses of short wavelength UV radiation (UVC; 254 nm). GDS400.qdab
GDS412 Amyotrophic lateral sclerosis (Lou Gehrig's Disease) Identification of amyotrophic lateral sclerosis (ALS) associated genes. Post mortem spinal cord grey matter from sporadic and familial ALS patients compared with controls. Attempt to identify mechanisms by which ALS destroys motor neurons. GDS412.qdab
GDS420 Severe combined immunodeficiency (HG-U133A) Investigation of molecular basis for immunodeficiency in severe combined immunodeficiency (SCID) patient. Thymocytes isolated from SCID patient compared with control subject. GDS420.qdab
GDS421 Severe combined immunodeficiency (HG-U95A) Investigation of molecular basis for immunodeficiency in severe combined immunodeficiency (SCID) patient. Thymocytes isolated from SCID patient compared with control subject. GDS421.qdab
GDS422 Normal human tissue expression profiling (HG-U95A) Analysis of gene expression in a variety of normal tissues. Samples typically composed of a pool of 10-25 individuals. Included as part of the GeneNote project. GDS422.qdab
GDS423 Normal human tissue expression profiling (HG-U95B) Analysis of gene expression in a variety of normal tissues. Samples typically composed of a pool of 10-25 individuals. Included as part of the GeneNote project. GDS423.qdab
GDS424 Normal human tissue expression profiling (HG-U95C) Analysis of gene expression in a variety of normal tissues. Samples typically composed of a pool of 10-25 individuals. Included as part of the GeneNote project. GDS424.qdab
GDS425 Normal human tissue expression profiling (HG-U95D) Analysis of gene expression in a variety of normal tissues. Samples typically composed of a pool of 10-25 individuals. Included as part of the GeneNote project. GDS425.qdab
GDS426 Normal human tissue expression profiling (HG-U95E) Analysis of gene expression in a variety of normal tissues. Samples typically composed of a pool of 10-25 individuals. Included as part of the GeneNote project. GDS426.qdab
GDS449 Cell cycle and Tat transactivation Analysis of effect of Tat transactivation during cell cycle. HeLa CD4+ cells transfected with epitope-tagged Tat plasmid or parental vector pCEP4. Cells synchronized with cell cycle blocker hydroxyurea or nocodazole and sampled at 0, 3, 6 and 9 hours. GDS449.qdab
GDS470 Cervical cancer Expression profiling of normal and cancerous cervix tissue samples at stages 1B, 2A, 2B and 3B. GDS470.qdab
GDS472 Muscle function and aging - female (HG-U133A) Comparison of gene expression in vastus lateralis skeletal muscle biopsies in healthy young (20-29 year old) and older (65-71 year old) women GDS472.qdab
GDS473 Muscle function and aging - female (HG-U133B) Comparison of gene expression in vastus lateralis skeletal muscle biopsies in healthy young (20-29 year old) and older (65-71 year old) women GDS473.qdab
GDS476 HCMV infection of foreskin fibroblasts Expression profiles of foreskin fibroblasts at 12 time points beginning 30 minutes after infection by human cytomegalovirus (HCMV) and continuing until 48 hours after infection. GDS476.qdab
GDS477 Coxsackievirus B3 pathogenesis (I) Temporal analaysis of an in vitro model of coxsackievirus B3 (CVB3) infection. HeLa cells infected with either CVB3 or control PBS and samples examined at 0, 0.5, 1, 3, 5, 7 and 9 hours following treatment. GDS477.qdab
GDS478 Coxsackievirus B3 pathogenesis (II) Temporal analysis of in vitro model of coxsackievirus B3 (CVB3) infection. HeLa cells infected with either CVB3, CVB3 and U0126 (blocks cytokines and metalloproteinases) or control PBS, and samples examined at 0, 0.5, 3 and 9 hours after treatment. GDS478.qdab
GDS479 Ionizing radiation effect on lymphoblastoid cells Temporal analysis of effect of 3 Gy and 10 Gy ionizing radiation (IR) exposure on lymphoblastoid cells. Various time points up to 24 hours examined. GDS479.qdab
GDS483 DACH1-responsive genes Analysis of effect of DACH1 in breast cancer cell line MDA-MB-231. DACH1 induced by ponasterone A treatment for 0, 18 or 36 hours. DACH1 may regulate aberrant TGF beta signals that have role in breast cancer progression. GDS483.qdab
GDS484 Uterine fibroid and normal myometrial tissue Comparison of normal myometrium and uterine leiomyomas obtained from fibroid afflicted patients. GDS484.qdab
GDS486 Rheumatoid arthritis and TNFalpha Analysis of rheumatoid arthritis synovial fibroblasts (RASF) expressing dominant negative form of inhibitor of nuclear factor kappa B (Ik-B). Ik-B blocks TNFalpha. Cells treated with TNFalpha at 18 hours. TNFalpha known to increase progression of RA. GDS486.qdab
GDS493 Cystic fibrosis pathology and 4-phenylbutyrate (HG-U133A) Effect of 1mM 4-phenylbutyrate (PBA) at 0, 12 and 24 hours in cystic fibrosis bronchial epithelial model cell line IB3-1. PBA modulates heat shock protein and promotes trafficking of deltaF508 cystic fibrosis transmembrane conductance regulator (CFTR). GDS493.qdab
GDS494 Cystic fibrosis pathology and 4-phenylbutyrate (HG-U133B) Effect of 1mM 4-phenylbutyrate (PBA) at 0, 12 and 24 hours in cystic fibrosis bronchial epithelial model cell line IB3-1. PBA modulates heat shock protein and promotes trafficking of deltaF508 cystic fibrosis transmembrane conductance regulator (CFTR). GDS494.qdab
GDS495 Angiogenesis Temporal analysis of human umbilical cord vein endothelial cell (HUVEC) isolates treated with angiogenic factors vascular endothelial growth factor-A (VEGF-A) and placental growth factor (PlGF) in low or high serum media. GDS495.qdab
GDS498 Inflammatory cytokine effect on primary lung endothelial cells Examination of gene expression induced by interferon gamma (IFNg), tumor necrosis factor alpha (TNFa) and interleukin 4 (IL4) inflammatory cytokines on primary lung endothelial cells. GDS498.qdab
GDS499 Inflammatory cytokine effect on primary aortic endothelial cells Examination of gene expression induced by interferon gamma (IFNg), tumor necrosis factor alpha (TNFa) and interleukin 4 (IL4) inflammatory cytokines on primary aortic endothelial cells. GDS499.qdab
GDS501 Inflammatory cytokine effect on primary dermal endothelial cells Examination of gene expression induced by interferon gamma (IFNg), tumor necrosis factor alpha (TNFa) and interleukin 4 (IL4) inflammatory cytokines on primary dermal endothelial cells. GDS501.qdab
GDS502 Inflammatory cytokine effect on primary colon endothelial cells Examination of gene expression induced by interferon gamma (IFNg), tumor necrosis factor alpha (TNFa) and interleukin 4 (IL4) inflammatory cytokines on primary colon endothelial cells. GDS502.qdab
GDS504 Pulmonary arterial hypertension and PBMC Analysis of peripheral blood mononuclear (PBMC) cells in patients with pulmonary arterial hypertension (PAH). Altered gene expression patterns in PAH PBMCs may allow disease subgroup identification and prediction of treatment response. GDS504.qdab
GDS505 Renal clear cell carcinoma (HG-U133A) Investigation into mechanisms of renal clear cell carcinogenesis (RCC). Comparison of renal clear cell tumor tissue and adjacent normal tissue isolated from the same surgical samples. GDS505.qdab
GDS507 Renal clear cell carcinoma (HG-U133B) Investigation into mechanisms of renal clear cell carcinogenesis (RCC). Comparison of renal clear cell tumor tissue and adjacent normal tissue isolated from the same surgical samples. GDS507.qdab
GDS511 Postmortem skeletal muscle Transcriptional profile of normal skeletal muscle collected at autopsy compared to surgical specimens. GDS511.qdab
GDS513 Familial combined hyperlipidemia and USF1 haplotype Comparison of subcutaneous adipose tissue from individuals with familial combined hyperlipidemia (FCHL) exhibiting either upstream transcription factor 1 (USF1) susceptibility or protective haplotype. USF1 regulates glucose and lipid metabolism genes. GDS513.qdab
GDS525 Extraocular and limb muscle comparison Molecular definition of extraocular muscle (EOM). Autopsy superior rectus EOM compared with biopsy limb quadriceps femoris muscle. GDS525.qdab
GDS527 Colorectal tumor cell response to X radiation (19K 3 Part A) Evaluation of colorectal tumor cell line (HCT116) response to X radiation (XR). XR sensitive HCT116-CloneK cells treated at 4 Gy for 10 minutes, 6 hours, and 24 hours. GDS527.qdab
GDS528 Colorectal tumor cell response to X radiation (19K 3 Part B) Evaluation of colorectal tumor cell line (HCT116) response to X radiation (XR). XR sensitive HCT116-CloneK cells treated at 4 Gy for 10 minutes, 6 hours, and 24 hours. GDS528.qdab
GDS531 Multiple myeloma and bone lesions Comparison of gene expression in bone marrow plasma cells of multiple myeloma patients with and without bone lesions. Osteolytic lesions increase in multiple myeloma patients. GDS531.qdab
GDS532 Hydrostatic pressure-responsive genes in optic nerve head astrocytes Temporal analysis of how astrocytes in the optic nerve head (ONH) respond to changes in intraocular pressure (IOP). ONH astrocytes exposed to 60 mm Hg hydrostatic pressure for 6, 24, and 48 hours. Lends understanding to pathogenesis of glaucoma. GDS532.qdab
GDS533 Uterine smooth muscle tumor characterization Comparison of gene expression in uterine smooth muscle tumors. Normal myometrium, benign uterine leiomyoma, malignant uterine and extra-uterine leiomyosarcoma examined. GDS533.qdab
GDS534 Smoking-induced changes in airway transcriptome Analysis of cigarette smoking-induced changes in bronchial epithelia, and reversibility of effects when smoking is discontinued. May provide insight to molecular events leading to chronic obstructive pulmonary disease (COPD) and lung cancer. GDS534.qdab
GDS535 Prostate cancer antiandrogen resistance Analysis of mechanisms of prostate cancer resistance to antiandrogen therapy. Isogenic hormone-sensitive and drug-resistant hormone-refractory xenograft pairs examined. GDS535.qdab
GDS536 Androgen receptor antagonist to agonist conversion Examination of antagonist to agonist conversion in androgen receptor-expressing hormone-sensitive LNCaP prostate cancer cells. Cells challenged with increasing doses of R1881, or bicalutamide. GDS536.qdab
GDS53 CD34+ cell analysis Comparison of gene expression in CD34+ cells from bone marrow and G-CSF-mobilized peripheral blood to investigate why the latter are optimal for allogeneic transplant recipients. GDS53.qdab
GDS552 Essential thrombocythemia megakaryocytes Malignant bone marrow CD34+ thrombopoietin-treated megakaryocytes from essential thrombocythemia (ET) patients compared with normal megakaryocytes. GDS552.qdab
GDS556 Extraocular muscle layer profiles (HG-U133A) Analysis of adult monkey whole medial and lateral rectus extraocular muscle (EOM), and microdissected medial rectus global and orbital EOM layers. GDS556.qdab
GDS557 Extraocular muscle layer profiles (HG-U133B) Analysis of adult monkey whole medial and lateral rectus extraocular muscle (EOM), and microdissected medial rectus global and orbital EOM layers. GDS557.qdab
GDS559 Inflammatory bowel disease (HG-U133A) Investigation into inflammatory bowel disease gene expression. Terminal ileum and colon transversum biopsies from Crohn´s disease, ulcerative colitis and control patients examined. GDS559.qdab
GDS560 Inflammatory bowel disease (HG-U133B) Investigation into inflammatory bowel disease gene expression. Terminal ileum and colon transversum biopsies from Crohn´s disease, ulcerative colitis and control patients examined. GDS560.qdab
GDS561 Osteopontin overexpression Investigation into effect of constitutive overexpression of osteopontin (OPN) in breast carcinoma cell line 21NT. GDS561.qdab
GDS562 Bone cell tissue culture on amino acid conjugated surfaces Evaluation of osteosarcoma TE85 cell tissue culture on a variety of amino acid conjugated surfaces at 6 and 32 hours. Study holds potential applications for bone tissue engineering. GDS562.qdab
GDS563 Duchenne muscular dystrophy (II) (HG-U95A) Search for modifying factors and pathogenic pathways involved in Duchenne muscular dystrophy (DMD). Quadricep skeletal muscle biopsies from 12 DMD patients and 11 unaffected control patients examined. GDS563.qdab
GDS564 Sex specific transcription in hypothalamus Examination of sex specific transcription in hypothalamus using postmortem samples from individuals averaging 70 years of age. GDS564.qdab
GDS594 Large-scale analysis of the human transcriptome (GNF1b) Gene atlas of human protein-encoding transcriptome. Examined gene expression profiles from 79 physiologically normal tissues obtained from various sources. GDS594.qdab
GDS596 Large-scale analysis of the human transcriptome (HG-U133A) Gene atlas of human protein-encoding transcriptome. Examined gene expression profiles from 79 physiologically normal tissues obtained from various sources. GDS596.qdab
GDS609 Duchenne muscular dystrophy (II) (HG-U95B) Search for modifying factors and pathogenic pathways involved in Duchenne muscular dystrophy (DMD). Quadricep skeletal muscle biopsies from DMD patients and unaffected control patients examined. GDS609.qdab
GDS610 Duchenne muscular dystrophy (II) (HG-U95C) Search for modifying factors and pathogenic pathways involved in Duchenne muscular dystrophy (DMD). Quadricep skeletal muscle biopsies from DMD patients and unaffected control patients examined. GDS610.qdab
GDS611 Duchenne muscular dystrophy (II) (HG-U95D) Search for modifying factors and pathogenic pathways involved in Duchenne muscular dystrophy (DMD). Quadricep skeletal muscle biopsies from DMD patients and unaffected control patients examined. GDS611.qdab
GDS612 Duchenne muscular dystrophy (II) (HG-U95E) Search for modifying factors and pathogenic pathways involved in Duchenne muscular dystrophy (DMD). Quadricep skeletal muscle biopsies from DMD patients and unaffected control patients examined. GDS612.qdab
GDS622 Endothelial cell microenvironment effect (1.2I) Comparison of high endothelial venules endothelial cells (HEVEC) freshly isolated from tonsils with dedifferentiated HEVEC cultured ex vivo for 48 hours identifies gene expression controlled by tissue microenvironment. GDS622.qdab
GDS623 Endothelial cell microenvironment effect (1.2II) Comparison of high endothelial venules endothelial cells (HEVEC) freshly isolated from tonsils with dedifferentiated HEVEC cultured ex vivo for 48 hours identifies gene expression controlled by tissue microenvironment. GDS623.qdab
GDS624 Endothelial cell microenvironment effect (cardiovascular array) Comparison of high endothelial venules endothelial cells (HEVEC) freshly isolated from tonsils with dedifferentiated HEVEC cultured ex vivo for 48 hours identifies gene expression controlled by tissue microenvironment. GDS624.qdab
GDS625 Gastric mucosa immune response to Helicobacter pylori Examination of gastric mucosa inflammatory response to Helicobacter pylori infection. Gastric biopsies from healthy and H. pylori-infected patients compared. Infection can lead to cellular hyperproliferation and malignant transformation. GDS625.qdab
GDS647 Aging of cultured myotubes and glucose metabolism Examination of aging myotubes from a muscle biopsy incubated in glucose. Myotubes in 25 mM glucose at 2, 3, 4, 5, and 7 weeks, and in 10 mM glucose at 4 weeks examined in reference to 0 mM glucose control at 1 week. GDS647.qdab
GDS649 Inflammatory response of interleukin-1-stimulated endothelial cells Temporal analysis of human umbilical vein endothelial cell (HUVEC) inflammatory response to interleukin-1 (IL-1) stimulation for 0, 0.5, 1, 2.5, and 6 hours. Immediate-early to early gene expression program characterized. GDS649.qdab
GDS651 Heart failure arising from different etiologies Examination of left ventricle in idiopathic dilated and ischemic cardiomyopathy. Diseased ventricles examined in reference to normal. GDS651.qdab
GDS670 Emphysema lung tissue expression profiling Expression profiling of lung tissue from normal individuals, and patients with either 'usual' emphysema or alpha-1 antitrypsin (AAT) deficiency-related emphysema. Global reduction in gene expression observed in emphysemic lungs. GDS670.qdab
GDS686 Store-operated calcium entry in HEK-293 cells Comparison of HEK-293-derived monoclonal cell lines with high or low levels of store-operated Ca2+ entry (SOCE). Levels of SOCE confirmed by monitoring thapsigargin-stimulated Ba2+ entry. GDS686.qdab
GDS687 Dermal papilla-induced epithelial stem cell differentiation Analysis of dermal papilla (DP) induced epithelial stem cell differentiation. Keratinocyte stem cells from bulge area of telogen hair follicle co-cultured with DP over a 5 day period. GDS687.qdab
GDS690 Intestinal epithelial cell immune response Analysis of intestinal epithelial cell immune response. 14 day old colon adenocarcinoma cell lines Caco-2 and T84 stimulated 4 hours with flagellin, or lymphotoxin beta or TNF alpha cytokines. GDS690.qdab
GDS705 RENT1 nonsense-mediated mRNA decay component knockdown Analysis of mRNA abundance changes in Hela cells following knockdown of nonsense-mediated mRNA decay component RENT1 using RNAi. Results identify transcripts potentially regulated by RENT1. GDS705.qdab
GDS707 Aging brain: frontal cortex expression profiles at various ages Analysis of gene expression profiles obtained from the postmortem frontal cortex of 18 normal males and 12 normal females at 26 to 106 years of age. Results provide insight into molecular events underlying the onset of brain aging. GDS707.qdab
GDS708 HIV integration sites and gene transcription activity Correlation of HIV integration sites to gene activity in SupT1 (T cell), PBMC (peripheral blood mononuclear cell), and IMR90 (lung fibroblast) cell lines infected with an HIV-based vector. Results provide insight into sites preferred in HIV integration. GDS708.qdab
GDS709 Enterocyte differentiation time course Enterocyte differentiation analyzed using colonic adenocarcinoma cell line Caco-2 BBe as a model. Cells examined at 2, 8, and 15 days in culture: these are in the proliferating, postproliferative nondifferentiated, and differentiated stages respectively. GDS709.qdab
GDS719 Prostate adenocarcinoma response to radiation (HG-U95A) Time course of androgen-independent LNCaP C4-2 prostate adenocarcinoma cells following ionizing radiation (IR) to a dose of 10 Sv. Cells harvested 6 or 24 hours after IR. Dose applied in 1 or 4 fractions. GDS719.qdab
GDS720 Prostate adenocarcinoma response to radiation (HG-U95B) Time course of androgen-independent LNCaP C4-2 prostate adenocarcinoma cells following ionizing radiation (IR) to a dose of 10 Sv. Cells harvested 6 or 24 hours after IR. Dose applied in 1 or 4 fractions. GDS720.qdab
GDS721 Prostate adenocarcinoma response to radiation (HG-U95C) Time course of androgen-independent LNCaP C4-2 prostate adenocarcinoma cells following ionizing radiation (IR) to a dose of 10 Sv. Cells harvested 6 or 24 hours after IR. Dose applied in 1 or 4 fractions. GDS721.qdab
GDS722 Prostate adenocarcinoma response to radiation (HG-U95D) Time course of androgen-independent LNCaP C4-2 prostate adenocarcinoma cells following ionizing radiation (IR) to a dose of 10 Sv. Cells harvested 6 or 24 hours after IR. Dose applied in 1 or 4 fractions. GDS722.qdab
GDS723 Prostate adenocarcinoma response to radiation (HG-U95E) Time course of androgen-independent LNCaP C4-2 prostate adenocarcinoma cells following ionizing radiation (IR) to a dose of 10 Sv. Cells harvested 6 or 24 hours after IR. Dose applied in 1 or 4 fractions. GDS723.qdab
GDS724 Kidney transplant rejection expression profiling Analysis of kidney transplant rejection by expression profiling of kidney biopsies and peripheral blood lymphocytes from patients. Results identify expression profiles unique to rejection, dysfunction without rejection, and well-functioning transplants. GDS724.qdab
GDS725 Prostate adenocarcinoma and ionizing radiation Time course of androgen-independent LNCaP C4-2 prostate adenocarcinoma cells following a dose of 10 Sv ionizing radiation (IR). Cells harvested at several time points up to 24 hours after IR. GDS725.qdab
GDS731 Leukotriene LTD4 effect on macrophage and endothelial cells Examination of gene expression in MonoMac6 macrophage and umbilical vein endothelial cells treated with 100 nM leukotriene LTD4 for 1 hour. Results offer insight into autocrine action of LTD4 on macrophages and its paracrine action on endothelial cells. GDS731.qdab
GDS737 Lung tissue from smokers with severe emphysema Comparison of lung tissue from smokers with severe emphysema (removed at lung volume reduction surgery) and smokers with mild or no emphysema. Study provides insights into the pathogenesis of chronic obstructive pulmonary disease (COPD). GDS737.qdab
GDS738 Intervertebral disc cells and osmotic loading Gene expression profiles of intervertebral disc cells (IVD) exposed to iso-osmotic, hyper-osmotic and hypo-osmotic conditions. Under physiological conditions, IVD are subject to osmotic stress. GDS738.qdab
GDS740 Chromosomally stable and unstable isogenic clone comparison Expression profiling of 2 pools of chromosomally unstable Chinese hamster-human hybrid GM10115 clones referenced to an isogenic stable clone RT210B. Clone Fe10-3 pooled with 10-56-11, and LS12 with 10-107-9. Chromosome instability induced by radiation. GDS740.qdab
GDS748 Beta-catenin S37A mutant effect on gene expression Expression profiling of 293T cells infected with RCAS vector carrying beta-catenin S37A mutant. Beta-catenin S37A mutant is oncogenic and more stable than the corresponding wild type protein. GDS748.qdab
GDS751 Natural killer cell expression profiling Expression profiling of CD56dimCD16+, CD56brightCD16-, and in vitro activated CD56+CD16+ natural killer (NK) cells. NK cells derived from purified peripheral blood pooled from 9 healthy donors. GDS751.qdab
GDS756 Colon cancer progression Comparison of gene expression in SW480, a primary tumor colon cancer cell line, to that in SW620, an isogenic metastatic colon cancer cell line. Cell lines derived from one individual. Results provide insight the progression of cancer from primary tumor growth to metastasis. GDS756.qdab
GDS761 Essential thrombocythemia expression profiling Expression profiling of malignant megakaryocytes (MK) from 6 donors with essential thrombocythemia (ET). MK derived from bone marrow CD34+ hematopoietic progenitor cells. Progenitors induced to differentiate into MK by treatment with 100 ng/ml thrombopoietin. Apoptotic pathway is impaired in ET. GDS761.qdab
GDS776 Interferon-alpha effect on monocytes primed with interferon-gamma Expression profiling of monocytes cultured for 2 days with 150 pg/ml interferon (IFN) gamma and then stimulated with 25 ng/ml of IFN-alpha. Monocytes obtained from 3 donors. Results provide insight into mechanisms underlying the enhanced response of IFN primed monocytes to cytokines. GDS776.qdab
GDS77 Macrophages infected with Salmonella (SHAD2) Identification of host pathways affected by the Salmonella virulence transcription factor phoP. phoP found to play a role in Salmonella-induced human macrophage cell death. GDS77.qdab
GDS781 CD14 cells from granulocyte colony stimulating factor mobilized peripheral blood: expression profile Expression profiling of CD14+ cells isolated from granulocyte colony stimulating factor (G-CSF) mobilized peripheral blood mononuclear cells (G-PBMC). Cells collected from normal donors after 3 days of G-CSF stimulation. G-PBMCs may confer a survival advantage to allogeneic transplant recipients. GDS781.qdab
GDS785 CD4+ T cell differentiation (HG-133A) Analysis of CD4+ T cell differentiation by expression profiling of subpopulations of CD4+ cells representing 5 successive stages of differentiation: intrathymic T progenitors, double positive thymocytes, single positive thymocytes, naïve T cells from cord blood, and naïve T cells from adult blood. GDS785.qdab
GDS786 CD4+ T cell differentiation (HG-133B) Analysis of CD4+ T cell differentiation by expression profiling of subpopulations of CD4+ cells representing 5 successive stages of differentiation: intrathymic T progenitors, double positive thymocytes, single positive thymocytes, naïve T cells from cord blood, and naïve T cells from adult blood. GDS786.qdab
GDS78 Macrophages infected with Salmonella (SHAI2) Identification of host pathways affected by the Salmonella virulence transcription factor phoP. phoP found to play a role in Salmonella-induced human macrophage cell death. GDS78.qdab
GDS806 Estrogen positive breast cancer recurrence during tamoxifen therapy: whole tissue tumor Expression profiling of estrogen positive primary breast cancer tumors from 60 patients. Patients subsequently treated with tamoxifen for 5 years, and tumors classified according to whether cancer recurred. Results identify gene markers of disease-free survival that include HOXB13 and IL17BR. GDS806.qdab
GDS807 Estrogen positive breast cancer recurrence during tamoxifen therapy: microdissected tumor Expression profiling of microdissected estrogen positive primary breast cancer tumors from 60 patients. Patients later treated with tamoxifen for 5 years, and tumors grouped according to whether cancer recurred. Results identify markers of disease-free survival that include HOXB13 and IL17BR. GDS807.qdab
GDS80 Macrophages infected with Salmonella (SHS)(I) Identification of host pathways affected by the Salmonella virulence transcription factor phoP. phoP found to play a role in Salmonella-induced human macrophage cell death. GDS80.qdab
GDS810 Alzheimer's disease at various stages of severity Expression profiling of brain hippocampi from 22 postmortem subjects with Alzheimer's disease (AD) at various stages of severity. 7, 8, and 7 subjects diagnosed with incipient, moderate, and severe AD respectively. Results provide insight into mechanisms underlying the early pathogenesis of AD. GDS810.qdab
GDS817 Breast cancer cell expression profiles (HG-U95A) Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from Affymetrix arrays to that from cDNA arrays. The method uses DNA sequence to match probes between platforms. GDS817.qdab
GDS820 Breast cancer cell expression profiles (HG-U133A) Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from Affymetrix arrays to that from cDNA arrays. The method uses DNA sequence to match probes between platforms. GDS820.qdab
GDS823 Breast cancer cell expression profiles (HG-U133B) Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from Affymetrix arrays to that from cDNA arrays. The method uses DNA sequence to match probes between platforms. GDS823.qdab
GDS825 Breast cancer cell expression profiles (G4100A) Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from cDNA arrays to that from Affymetrix arrays. The method uses DNA sequence to match probes between platforms. GDS825.qdab
GDS826 Erythroid differentiation of erythroleukemia cell line induced by hemin: time course Expression profiling of K562 erythroleukemia cells induced to differentiate into erythroid-like cells by hemin. K562 cells examined at various time points up to 72 hours following treatment with 50 uM hemin. Results provide insight into mechanisms underlying hemoglobinization. GDS826.qdab
GDS829 Alternative pre-mRNA splicing in various tissues and cell lines (Rosetta/Merck Splicing Chip 1) Monitoring of mRNA splice variants for more than 10,000 multi-exon genes using arrays with oligonucleotide probes positioned at exon-exon junctions. mRNA from 52 tissues and cell lines examined. Results provide tissue distribution of splice variants and identify novel splice variants. GDS829.qdab
GDS830 Alternative pre-mRNA splicing in various tissues and cell lines (Rosetta/Merck Splicing Chip 2) Monitoring of mRNA splice variants for more than 10,000 multi-exon genes using arrays with oligonucleotide probes positioned at exon-exon junctions. mRNA from 52 tissues and cell lines examined. Results provide tissue distribution of splice variants and identify novel splice variants. GDS830.qdab
GDS831 Alternative pre-mRNA splicing in various tissues and cell lines (Rosetta/Merck Splicing Chip 3) Monitoring of mRNA splice variants for more than 10,000 multi-exon genes using arrays with oligonucleotide probes positioned at exon-exon junctions. mRNA from 52 tissues and cell lines examined. Results provide tissue distribution of splice variants and identify novel splice variants. GDS831.qdab
GDS832 Alternative pre-mRNA splicing in various tissues and cell lines (Rosetta/Merck Splicing Chip 4) Monitoring of mRNA splice variants for more than 10,000 multi-exon genes using arrays with oligonucleotide probes positioned at exon-exon junctions. mRNA from 52 tissues and cell lines examined. Results provide tissue distribution of splice variants and identify novel splice variants. GDS832.qdab
GDS833 Alternative pre-mRNA splicing in various tissues and cell lines (Rosetta/Merck Splicing Chip 5) Monitoring of mRNA splice variants for more than 10,000 multi-exon genes using arrays with oligonucleotide probes positioned at exon-exon junctions. mRNA from 52 tissues and cell lines examined. Results provide tissue distribution of splice variants and identify novel splice variants. GDS833.qdab
GDS834 Sindbis virus-induced cell death Comparison of 293 cells that are resistant to Sindbis virus-induced cell death (clones 9, 43) versus cells that are sensitive to Sindbis virus-induced cell death (wild type 293). GDS834.qdab
GDS838 Imatinib effects on chronic myelogenous leukemia CD34+ cells Comparison of purified bone marrow CD34+ cells from imatinib-treated chronic myelogenous leukemia (CML) patients and healthy donors. GDS838.qdab
GDS841 Adult acute myeloid leukemia: bone marrow and peripheral blood expression profiles (SHCO) Part of a study profiling 54 bone marrow and 65 peripheral blood samples from 116 adults with acute myeloid leukemia (AML). Results identify distinct gene expression signatures that correlate with clinical outcomes. Signatures used to construct a clinical outcome predictor using 133 genes. GDS841.qdab
GDS843 Adult acute myeloid leukemia: bone marrow and peripheral blood expression profiles (SHDJ) Part of a study profiling 54 bone marrow and 65 peripheral blood samples from 116 adults with acute myeloid leukemia (AML). Results identify distinct gene expression signatures that correlate with clinical outcomes. Signatures used to construct a clinical outcome predictor using 133 genes. GDS843.qdab
GDS845 Breast cancer cell line ME16C response to chemotherapeutics: time course Analysis of the response of the basal epithelium derived breast cancer line ME16C to either doxorubicin or 5-fluorouracil. Cells examined 12, 24, and 36 hours following treatment. Results provide insight into the response of breast cancers derived from different cell types to chemotherapeutics. GDS845.qdab
GDS846 Breast cancer cell line HME-CC response to chemotherapeutics: time course Analysis of the response of basal epithelium derived breast cancer line HME-CC to either doxorubicin or 5-fluorouracil. Cells examined 12, 24, and 36 hours following treatment. Results provide insight into the response of breast cancers derived from different cell types to chemotherapeutics. GDS846.qdab
GDS847 Breast cancer cell line MCF-7 response to chemotherapeutics: time course Analysis of the response of luminal epithelium derived breast cancer line MCF-7 to either doxorubicin or 5-fluorouracil. Cells examined 12, 24, and 36 hours following treatment. Results provide insight into the response of breast cancers derived from different cell types to chemotherapeutics. GDS847.qdab
GDS848 Breast cancer cell line ZR-75-1 response to chemotherapeutics: time course Analysis of the response of luminal epithelium derived breast cancer line ZR-75-1 to either doxorubicin or 5-fluorouracil. Cells examined 12, 24, and 36 hours following treatment. Results provide insight into the response of breast cancers derived from different cell types to chemotherapeutics. GDS848.qdab
GDS849 Hereditary spastic paraparesis Analysis of gene expression in skeletal muscle of three patients affected by hereditary spastic paraplegia (HSP) caused by mutations of spastin (SPG4). SPG4 is an ubiquitously expressed protein involved in microtubule regulation and vesicle traffic. GDS849.qdab
GDS852 Alveolar epithelial cell line A549 response to acute lung injury causing stimuli: time course Examination of alveolar epithelial A549 cells in models of pulmonary parenchymal cell activation: exposure to tumor necrosis factor-alpha (TNF-alpha), lipopolysaccharide (LPS), or cyclic stretch. Cells examined 1 and 4 hours after exposure to each acute lung injury-causing stimulus. GDS852.qdab
GDS854 Transforming growth factor beta effect on acute myelogenous leukemia cells Analysis of M091 acute myelogenous leukemia cells after treatment with 200 pM transforming growth factor beta (TGFbeta) for 2 and 4 hours. Part of a study comparing M091 to hematopoietic stem cells. Reveals cytostatic role of TGFbeta in hematopoiesis and identifies p57 as a possible tumor suppressor GDS854.qdab
GDS855 Transforming growth factor beta effect on CD34+ hematopoietic stem cells Analysis of CB-CD34 CD34+ hematopoietic stem cells after treatment with 200 pM TGFbeta for 2 and 4 hours. Part of a study comparing CB-CD34 cells to acute myelogenous leukemia cells. Reveals cytostatic role of TGFbeta in hematopoiesis and identifies p57 as a possible tumor suppressor. GDS855.qdab
GDS858 Mucoid and motile Pseudomonas aeruginosa infected lung epithelial cell comparison Comparison of lung epithelial Calu-3 cells infected with the mucoid alginate-producing FRD1 strain to those infected with the isogenic motile flagellin-producing FRD440 strain of Pseudomonas aeruginosa. Mucoid and motile strains are associated with chronic and acute lung infections, respectively. GDS858.qdab
GDS85 Serum stimulation time course (10k_print2) Temporal transcriptional program of primary fibroblasts in response to serum. Samples taken at various time points up to 24 hours. GDS85.qdab
GDS860 Endothelin-1 effect on fibroblasts Cultured primary lung fibroblasts incubated 4 hours in the presence or absence of 100 nM endothelin-1 (ET-1). Results suggest that ET-1 is involved in matrix synthesis and connective tissue deposition during wound repair and in pulmonary fibrosis. GDS860.qdab
GDS86 Serum stimulation time course (10k_print1) Analysis of a temporal transcriptional program in the response of primary fibroblast cultures to serum. Samples taken at 15 minutes and 2 hours. GDS86.qdab
GDS881 Breast cancer and selective estrogen receptor modulators Analysis of gene stimulation and inhibition by the selective estrogen receptor modulators (SERMs) trans-hydroxytamoxifen (TOT) and raloxifene (Ral) or ICI 182,780 (ICI) and by estradiol (E2) in estrogen receptor-containing MCF-7 breast cancer cells. Cells were treated for 8 or 48 hours. GDS881.qdab
GDS884 Estradiol effect on osteosarcoma cells expressing estrogen receptor alpha or beta: time course Expression profiling of U2OS osteosarcoma cells after treatment with 17beta-estradiol (E2) for various lengths of time up to 48 hours. U2OS transfected with either estrogen receptor (ER) alpha or beta. Results identify signaling pathways in bone regulated by E2 through ERalpha and ERbeta. GDS884.qdab
GDS885 Tumor cell response to topoisomerase poison camptothecin HeLa tumor cells treated with 10 uM topoisomerase poison camptothecin (CPT) for 8 hours. This dose and time are sufficient to induce rapid apoptosis. Results identify potential targets for adjuvant cancer therapy. GDS885.qdab
GDS88 Cancer cell lines (10k_print2) Analysis of cell lines used in the National Cancer Institute's screen for anti-cancer drugs. Gene expression is linked to phenotypic properties and drug sensitivity profiles of the cell lines. GDS88.qdab
GDS892 GATA3 ectopic expression in 293T cells Examination of 293T epithelial kidney cells stably transfected with either wild type GATA3 or R367L mutant GATA3. GATA3 can be highly expressed in breast tumors. GATA3 variants may contribute to tumorigenesis. GDS892.qdab
GDS893 GATA3 ectopic expression in 293T cells (dye-swap) Examination of 293T epithelial kidney cells stably transfected with either wild type GATA3 or R367L mutant GATA3. GATA3 can be highly expressed in breast tumors. GATA3 variants may contribute to tumorigenesis. GDS893.qdab
GDS894 Skeletal muscle response to exercise and circadian rhythms Analysis of effects of resistance exercise (RE) and time of day in skeletal muscle. Biopsies of male vastus lateralis muscle obtained 6 and 18 hours after acute RE, or no RE. Results suggest that RE may directly modulate circadian rhythms in skeletal muscle. GDS894.qdab
GDS901 Estrogen receptor alpha L540Q mutation effect on gene induction by estradiol: time course Analysis of breast cancer cell line 231/ERalpha expressing L540Q mutant estrogen receptor after 1 or 2 hour estradiol treatment. Mutant receptor is defective in binding steroid receptor coactivator (SRC) proteins. Results identify estrogen-regulated genes that require SRCs for expression. GDS901.qdab
GDS906 Bladder smooth muscle cell response to mechanical stretch Expression profiling of cultured bladder smooth muscle cells subjected to repetitive mechanical stimulation for 4 hours. Chronic overdistension results in bladder wall thickening, associated with loss of muscle contractility. Results identify genes whose expression is altered by mechanical stimuli. GDS906.qdab
GDS909 Alternative splicing in five tissues Detection of tissue-specific regulation of alternative splicing for 316 genes in five normal tissues (brain, muscle, liver, bone marrow, testes) using array containing oligonucleotides spanning individual exons and splice junctions. GDS909.qdab
GDS910 Alternative splicing in five tissues (dye-swap) Detection of tissue-specific regulation of alternative splicing for 316 genes in five normal tissues (brain, muscle, liver, bone marrow, testes) using array containing oligonucleotides spanning individual exons and splice junctions. GDS910.qdab
GDS911 Growth-arrested cell: serum deprivation and contact inhibition growth-arrest comparison Expression profiling of T98G cancer cells in growth-arrest induced by 3 days of either serum deprivation or contact inhibition. Results show that targets of the p130- E2F4 repressor complex are downregulated under the two growth-arrest conditions. GDS911.qdab
GDS913 DNA damage from ultraviolet and ionizing radiation effect on peripheral blood lymphocytes Analysis of peripheral blood lymphocytes exposed to ultraviolet (10 J/m^2) or ionizing radiation (5 Gy). Lymphocytes obtained from 15 healthy individuals from ages 21 to 36 years and immortalized with Epstein-Barr virus. Results provide insight into transcriptional response to DNA damage. GDS913.qdab
GDS915 Metabolic syndrome response to exercise intervention (HG-95A) Analysis of skeletal muscle from overweight males with metabolic syndrome. Individuals subjected to chronic exercise training. Muscles examined prior to training, and after 1 and 14 days of recovery following 9 months training. Provides insight into effects of exercise intervention. GDS915.qdab
GDS916 Ewing family tumor histogenetic origin Human embryonic kidney cells HEK293 transfected with the Ewing family tumor (EFT)-specific EWS-FLI1 fusion protein to investigate the histogenetic origin of EFTs. The observed EFT-specific gene expression profile supports the concept of a neural crest and endothelial origin of EFT stem cells. GDS916.qdab
GDS917 Whole blood RNA isolation and leukocyte RNA purification: comparison of methods Comparison of RNA isolation from whole blood using the PAXgene system to that from leukocytes using the buffy coat procedure. Blood of healthy subjects and trauma patients examined. Results indicate that RNA isolated from whole blood produced more noise than that from leukocytes. GDS917.qdab
GDS918 Ewing family tumor cells: effect of transfection Analysis of Ewing family tumor (EFT) cell line A673 response to interleukin-2 (IL-2) transfection to assess possible undesirable effects (e.g. tumor stimulation) of in vitro manipulation. Results impact the potential use of IL-2 transfection as an in vivo immunotherapy for EFT patients. GDS918.qdab
GDS940 Kaposi sarcoma-associated herpesvirus infection of primary human dermal endothelial cells Primary human dermal endothelial cells (HDMEC) were infected with isolated Kaposi sarcoma-associated herpesvirus (KSHV) for 7 days. Infection of HDVECs with KSHV results in upregulation of lymphatic lineage-specific genes and downregulation of blood vascular genes. GDS940.qdab
GDS942 Skeletal myoblast cell line KM109 differentiation: time course (I) Expression profiling of primary myoblast cell line KM109 obtained from muscle biopsy of a healthy individual and induced to differentiate by serum deprivation. Cells examined at various time points up to 14 days following serum deprivation. Results provide insight into late myogenesis. GDS942.qdab
GDS943 Skeletal myoblast cell line KM109 differentiation: time course (I, dye-swap) Expression profiling of primary myoblast cell line KM109 obtained from muscle biopsy of a healthy individual and induced to differentiate by serum deprivation. Cells examined at various time points up to 14 days following serum deprivation. Results provide insight into late myogenesis. GDS943.qdab
GDS944 Skeletal myoblast cell line KM109 differentiation: time course (II) Expression profiling of primary myoblast cell line KM109 obtained from muscle biopsy of a healthy individual and induced to differentiate by serum deprivation. Cells examined at various time points up to 14 days following serum deprivation. Results provide insight into late myogenesis. GDS944.qdab
GDS945 Skeletal myoblast cell line KM109 differentiation: time course (II, dye-swap) Expression profiling of primary myoblast cell line KM109 obtained from muscle biopsy of a healthy individual and induced to differentiate by serum deprivation. Cells examined at various time points up to 14 days following serum deprivation. Results provide insight into late myogenesis. GDS945.qdab
GDS946 Familial combined hyperlipidemia Expression profiling of lymphoblastic cell lines derived from the peripheral blood lymphocytes of patients with familial combined hyperlipidemia (FCHL), the most common form of genetically determined dyslipidemia. Results provide insight into the pathophysiology of FCHL. GDS946.qdab
GDS961 Diabetic nephropathy Comparison of glomeruli from kidneys with diabetic nephropathy (DN) and glomeruli from kidneys of healthy individuals. Progression of DN may be due to diminished tissue repair capability. GDS961.qdab
GDS962 Peripheral blood mononuclear cells and the effect of exercise Peripheral blood mononuclear cells (PBMC) were isolated from blood samples taken from healthy male subjects before, immediately after, and 60 minutes after 30 minutes of exercise. Brisk activation and deactivation of genes associated with stress, inflammation, and tissue repair observed. GDS962.qdab
GDS963 Macular degeneration and dermal fibroblast response to sublethal oxidative stress Expression profiling of dermal fibroblasts from patients with macular degeneration. Fibroblasts subjected to sublethal oxidative stress. This study tests the hypothesis that patients with macular degeneration have an abnormal response to cellular injury in sites other than the eye. GDS963.qdab
GDS968 Radiation therapy toxicity association with abnormal transcriptional response to DNA damage Analysis of UV and IR irradiated lymphoblastoid cell lines derived from the peripheral blood of patients with acute radiation toxicity. Samples taken 2 months after the completion of radiation therapy. Results provide insight into the role of the response to DNA damage in radiation toxicity. GDS968.qdab
GDS969 Bone marrow prolonged storage effects Analysis of impact of pre-analytical handling of bone marrow (BM). Time delays of 0, 24, or 48 hours between sample aspiration and RNA extraction examined. Storage of BM has dramatic effects on mRNA expression of individual transcripts. GDS969.qdab
GDS971 Rhabdomyosarcoma and Ewing's sarcoma comparison Comparison of gene expression in 12 pediatric rhabdomyosarcomas (RMS) to that in 11 pediatric Ewing's sarcomas (EWS). 3 embryonic and 9 alveolar RMS tumors examined. RMS and EWS appear similar in routine histology. Results identify expression profiles that distinguish RMS from EWS. GDS971.qdab
GDS987 Kidney transplant response to calcineurin inhibitor-free immunosuppression using sirolimus Analysis of kidneys from adult renal transplant recipients subjected to calcineurin inhibitor-free immunosuppression using sirolimus. Patients treated with sirolimus have a lower prevalence of chronic allograft nephropathy compared to those treated with cyclosporine, a calcineurin inhibitor. GDS987.qdab
GDS988 Kaposi's sarcoma-associated herpesvirus LANA overexpression in B lymphoid cells: time course Expression profiling of B lymphoid cell lines overexpressing the latency-associated nuclear antigen (LANA) of Kaposi's sarcoma-associated herpesvirus. B cells made to express LANA from a tetracycline inducible promoter. Expression examined at various time points up to 48 hours after induction. GDS988.qdab
GDS989 Kaposi's sarcoma-associated herpesvirus and Epstein-Barr virus infected cell lines Expression profiling of cell lines BCBL-1 and BC-3 infected by Kaposi's sarcoma-associated herpesvirus (KSHV), Raji infected by the Epstein-Barr virus (EBV), and BC-1 infected by both viruses. Results identify expression patterns specific to KSHV-infected primary effusion lymphoma derived cells. GDS989.qdab
GDS992 Endoplasmic reticulum membrane-associated genes in breast cancer cell line MCF-7 Identification of genes whose mRNA are translated from the endoplasmic reticulum (ER) in the breast cancer cell line MCF-7. Secreted and membrane-bound proteins are preferentially translated in the ER. Results provide insight into the association of membrane-bound proteins and breast cancer. GDS992.qdab
GDS999 Bronchoalveolar lavage cells of lung transplant recipients with acute rejection Expression profiling of bronchoalveolar lavage cells of lung transplant recipients with acute rejection. Rejection status determined from biopsies. Results identify possible gene markers of lung transplant rejection. GDS999.qdab
GSEA C2 CGP Chemical and genetic perturbations Chemical and genetic perturbations gsea_c2_cgp.qdab
GSEA C3 MIR Shared 3-UTR microRNA binding motif Shared 3-UTR microRNA binding motif gsea_c3_mir.qdab
IntAct Physical and genetic interactions Physical and genetic interactions intact.qdab
Jaspar Co-occurence of transcription factor binding sites Co-occurence of transcription factor binding sites jaspar.qdab
MINT Physical and genetic interactions Physical and genetic interactions mint.qdab
MIPS Physical and genetic interactions Physical and genetic interactions mips.qdab