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.

Download tissue networks and gold standards

All networks are available as gzipped, tab-delimited text files. The file format is as follows:

        	Top Edges: the network is filtered to only include edges with evidence supporting a tissue-specific functional interaction
        	[entrez gene id 1][entrez gene id 2][posterior prob.]

        	Full Network: the network is fully connected 
        	[entrez gene id 1][entrez gene id 2][posterior prob., with known edges set to 1][posterior prob.]

                Gold Standard: each file (e.g. kidney.dat) contains edges with values 1 through 4 corresponding 
		to C1 - C4 described in our paper. C1 edges are used as positives and C2-C4 are used as negatives 
		to train the tissue-specific models.
    	

Note: These downloadable networks assume a prior probability of 0.1 to match the displayed networks

TissueTop EdgesFull NetworkGold Standard
adipose tissueadipose_tissue_top.gzadipose_tissue.gz adipose_tissue.dat
adrenal cortexadrenal_cortex_top.gzadrenal_cortex.gz adrenal_cortex.dat
adrenal glandadrenal_gland_top.gzadrenal_gland.gz adrenal_gland.dat
all tissuesall_tissues_top.gzall_tissues.gz
amygdalaamygdala_top.gzamygdala.gz amygdala.dat
aortaaorta_top.gzaorta.gz aorta.dat
arteryartery_top.gzartery.gz artery.dat
astrocyteastrocyte_top.gzastrocyte.gz astrocyte.dat
b lymphocyteb_lymphocyte_top.gzb_lymphocyte.gz b_lymphocyte.dat
basal ganglionbasal_ganglion_top.gzbasal_ganglion.gz basal_ganglion.dat
basophilbasophil_top.gzbasophil.gz basophil.dat
bloodblood_top.gzblood.gz blood.dat
blood plasmablood_plasma_top.gzblood_plasma.gz blood_plasma.dat
blood plateletblood_platelet_top.gzblood_platelet.gz blood_platelet.dat
blood vesselblood_vessel_top.gzblood_vessel.gz blood_vessel.dat
bonebone_top.gzbone.gz bone.dat
bone marrowbone_marrow_top.gzbone_marrow.gz bone_marrow.dat
brainbrain_top.gzbrain.gz brain.dat
bronchial epithelial cellbronchial_epithelial_cell_top.gzbronchial_epithelial_cell.gz bronchial_epithelial_cell.dat
bronchusbronchus_top.gzbronchus.gz bronchus.dat
cardiac musclecardiac_muscle_top.gzcardiac_muscle.gz cardiac_muscle.dat
cartilagecartilage_top.gzcartilage.gz cartilage.dat
caudate nucleuscaudate_nucleus_top.gzcaudate_nucleus.gz caudate_nucleus.dat
caudate putamencaudate_putamen_top.gzcaudate_putamen.gz caudate_putamen.dat
cecumcecum_top.gzcecum.gz cecum.dat
central nervous systemcentral_nervous_system_top.gzcentral_nervous_system.gz central_nervous_system.dat
cerebellar cortexcerebellar_cortex_top.gzcerebellar_cortex.gz cerebellar_cortex.dat
cerebellumcerebellum_top.gzcerebellum.gz cerebellum.dat
cerebral cortexcerebral_cortex_top.gzcerebral_cortex.gz cerebral_cortex.dat
chondrocytechondrocyte_top.gzchondrocyte.gz chondrocyte.dat
choroidchoroid_top.gzchoroid.gz choroid.dat
cochleacochlea_top.gzcochlea.gz cochlea.dat
coloncolon_top.gzcolon.gz colon.dat
corneacornea_top.gzcornea.gz cornea.dat
corpus callosumcorpus_callosum_top.gzcorpus_callosum.gz corpus_callosum.dat
corpus luteumcorpus_luteum_top.gzcorpus_luteum.gz corpus_luteum.dat
corpus striatumcorpus_striatum_top.gzcorpus_striatum.gz corpus_striatum.dat
culture condition cd8 cellculture_condition_cd8_cell_top.gzculture_condition_cd8_cell.gz culture_condition_cd8_cell.dat
dendritic celldendritic_cell_top.gzdendritic_cell.gz dendritic_cell.dat
dentate gyrusdentate_gyrus_top.gzdentate_gyrus.gz dentate_gyrus.dat
diencephalondiencephalon_top.gzdiencephalon.gz diencephalon.dat
duodenumduodenum_top.gzduodenum.gz duodenum.dat
earear_top.gzear.gz ear.dat
embryoembryo_top.gzembryo.gz embryo.dat
eosinophileosinophil_top.gzeosinophil.gz eosinophil.dat
epidermisepidermis_top.gzepidermis.gz epidermis.dat
esophagusesophagus_top.gzesophagus.gz esophagus.dat
eyeeye_top.gzeye.gz eye.dat
fetusfetus_top.gzfetus.gz fetus.dat
forebrainforebrain_top.gzforebrain.gz forebrain.dat
frontal lobefrontal_lobe_top.gzfrontal_lobe.gz frontal_lobe.dat
gastrointestinal tractgastrointestinal_tract_top.gzgastrointestinal_tract.gz gastrointestinal_tract.dat
gliaglia_top.gzglia.gz glia.dat
granulocytegranulocyte_top.gzgranulocyte.gz granulocyte.dat
hair folliclehair_follicle_top.gzhair_follicle.gz hair_follicle.dat
heartheart_top.gzheart.gz heart.dat
hematopoietic stem cellhematopoietic_stem_cell_top.gzhematopoietic_stem_cell.gz hematopoietic_stem_cell.dat
hepatocytehepatocyte_top.gzhepatocyte.gz hepatocyte.dat
hippocampushippocampus_top.gzhippocampus.gz hippocampus.dat
hypophysishypophysis_top.gzhypophysis.gz hypophysis.dat
hypothalamushypothalamus_top.gzhypothalamus.gz hypothalamus.dat
ileumileum_top.gzileum.gz ileum.dat
intestineintestine_top.gzintestine.gz intestine.dat
jejunumjejunum_top.gzjejunum.gz jejunum.dat
keratinocytekeratinocyte_top.gzkeratinocyte.gz keratinocyte.dat
kidneykidney_top.gzkidney.gz kidney.dat
large intestinelarge_intestine_top.gzlarge_intestine.gz large_intestine.dat
lenslens_top.gzlens.gz lens.dat
leukocyteleukocyte_top.gzleukocyte.gz leukocyte.dat
liverliver_top.gzliver.gz liver.dat
locus ceruleuslocus_ceruleus_top.gzlocus_ceruleus.gz locus_ceruleus.dat
lunglung_top.gzlung.gz lung.dat
lymph nodelymph_node_top.gzlymph_node.gz lymph_node.dat
lymphocytelymphocyte_top.gzlymphocyte.gz lymphocyte.dat
macrophagemacrophage_top.gzmacrophage.gz macrophage.dat
mammary epitheliummammary_epithelium_top.gzmammary_epithelium.gz mammary_epithelium.dat
mammary glandmammary_gland_top.gzmammary_gland.gz mammary_gland.dat
mast cellmast_cell_top.gzmast_cell.gz mast_cell.dat
medulla oblongatamedulla_oblongata_top.gzmedulla_oblongata.gz medulla_oblongata.dat
megakaryocytemegakaryocyte_top.gzmegakaryocyte.gz megakaryocyte.dat
midbrainmidbrain_top.gzmidbrain.gz midbrain.dat
monocytemonocyte_top.gzmonocyte.gz monocyte.dat
mononuclear phagocytemononuclear_phagocyte_top.gzmononuclear_phagocyte.gz mononuclear_phagocyte.dat
musclemuscle_top.gzmuscle.gz muscle.dat
myometriummyometrium_top.gzmyometrium.gz myometrium.dat
natural killer cellnatural_killer_cell_top.gznatural_killer_cell.gz natural_killer_cell.dat
nephronnephron_top.gznephron.gz nephron.dat
nervous systemnervous_system_top.gznervous_system.gz nervous_system.dat
neuronneuron_top.gzneuron.gz neuron.dat
neutrophilneutrophil_top.gzneutrophil.gz neutrophil.dat
nucleus accumbensnucleus_accumbens_top.gznucleus_accumbens.gz nucleus_accumbens.dat
occipital lobeoccipital_lobe_top.gzoccipital_lobe.gz occipital_lobe.dat
occipital poleoccipital_pole_top.gzoccipital_pole.gz occipital_pole.dat
osteoblastosteoblast_top.gzosteoblast.gz osteoblast.dat
ovarian follicleovarian_follicle_top.gzovarian_follicle.gz ovarian_follicle.dat
ovaryovary_top.gzovary.gz ovary.dat
oviductoviduct_top.gzoviduct.gz oviduct.dat
pancreaspancreas_top.gzpancreas.gz pancreas.dat
pancreatic isletpancreatic_islet_top.gzpancreatic_islet.gz pancreatic_islet.dat
parietal lobeparietal_lobe_top.gzparietal_lobe.gz parietal_lobe.dat
peripheral nervous systemperipheral_nervous_system_top.gzperipheral_nervous_system.gz peripheral_nervous_system.dat
placentaplacenta_top.gzplacenta.gz placenta.dat
podocytepodocyte_top.gzpodocyte.gz podocyte.dat
ponspons_top.gzpons.gz pons.dat
prostate glandprostate_gland_top.gzprostate_gland.gz prostate_gland.dat
renal glomerulusrenal_glomerulus_top.gzrenal_glomerulus.gz renal_glomerulus.dat
renal tubulerenal_tubule_top.gzrenal_tubule.gz renal_tubule.dat
retinaretina_top.gzretina.gz retina.dat
salivary glandsalivary_gland_top.gzsalivary_gland.gz salivary_gland.dat
serumserum_top.gzserum.gz serum.dat
skeletal muscleskeletal_muscle_top.gzskeletal_muscle.gz skeletal_muscle.dat
skinskin_top.gzskin.gz skin.dat
skin fibroblastskin_fibroblast_top.gzskin_fibroblast.gz skin_fibroblast.dat
small intestinesmall_intestine_top.gzsmall_intestine.gz small_intestine.dat
smooth musclesmooth_muscle_top.gzsmooth_muscle.gz smooth_muscle.dat
spermatidspermatid_top.gzspermatid.gz spermatid.dat
spermatocytespermatocyte_top.gzspermatocyte.gz spermatocyte.dat
spermatogoniumspermatogonium_top.gzspermatogonium.gz spermatogonium.dat
spinal cordspinal_cord_top.gzspinal_cord.gz spinal_cord.dat
spleenspleen_top.gzspleen.gz spleen.dat
stomachstomach_top.gzstomach.gz stomach.dat
substantia nigrasubstantia_nigra_top.gzsubstantia_nigra.gz substantia_nigra.dat
subthalamic nucleussubthalamic_nucleus_top.gzsubthalamic_nucleus.gz subthalamic_nucleus.dat
t lymphocytet_lymphocyte_top.gzt_lymphocyte.gz t_lymphocyte.dat
tear glandtear_gland_top.gztear_gland.gz tear_gland.dat
telencephalontelencephalon_top.gztelencephalon.gz telencephalon.dat
temporal lobetemporal_lobe_top.gztemporal_lobe.gz temporal_lobe.dat
testistestis_top.gztestis.gz testis.dat
thalamusthalamus_top.gzthalamus.gz thalamus.dat
thymocytethymocyte_top.gzthymocyte.gz thymocyte.dat
thyroid glandthyroid_gland_top.gzthyroid_gland.gz thyroid_gland.dat
tonsiltonsil_top.gztonsil.gz tonsil.dat
toothtooth_top.gztooth.gz tooth.dat
tracheatrachea_top.gztrachea.gz trachea.dat
trophoblasttrophoblast_top.gztrophoblast.gz trophoblast.dat
umbilical cordumbilical_cord_top.gzumbilical_cord.gz umbilical_cord.dat
umbilical vein endothelial cellumbilical_vein_endothelial_cell_top.gzumbilical_vein_endothelial_cell.gz umbilical_vein_endothelial_cell.dat
urinary bladderurinary_bladder_top.gzurinary_bladder.gz urinary_bladder.dat
uroepitheliumuroepithelium_top.gzuroepithelium.gz uroepithelium.dat
uterine cervixuterine_cervix_top.gzuterine_cervix.gz uterine_cervix.dat
uterine endometriumuterine_endometrium_top.gzuterine_endometrium.gz uterine_endometrium.dat
uterusuterus_top.gzuterus.gz uterus.dat
vascular endothelial cellvascular_endothelial_cell_top.gzvascular_endothelial_cell.gz vascular_endothelial_cell.dat
vascular endotheliumvascular_endothelium_top.gzvascular_endothelium.gz vascular_endothelium.dat
vermiform appendixvermiform_appendix_top.gzvermiform_appendix.gz vermiform_appendix.dat