Coexpression cluster:C258: Difference between revisions
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|tf_chipseq_enrich=EP300#2033;20:2.6564477357738:1.75997255871597e-05:0.000401945711917204!FOXA1#3169;19:4.12837206349654:3.93374019712564e-08:2.60352276582766e-06!FOXA2#3170;15:7.24425404490154:1.05161906223155e-09:9.7023006396114e-08!HDAC2#3066;17:4.47187341220875:8.39452033032538e-08:5.00122823034143e-06!HEY1#23462;31:2.45575377129955:5.21144946570844e-08:3.3228239972474e-06!HNF4A#3172;17:7.7107634543179:2.27901291498016e-11:2.72020376945844e-09!HNF4G#3174;14:7.89309637980892:1.4330301822606e-09:1.2813719110027e-07!NANOG#79923;6:3.44056217423678:0.00769433453761776:0.0316859983744435!RXRA#6256;13:5.11705927075946:9.189144886148e-07:3.94615585018261e-05!SETDB1#9869;5:3.9529437429422:0.0085432049896719:0.0325612650870864!SIN3A#25942;19:2.01507470214682:0.0012625345056148:0.00847633332681306!SP1#6667;19:2.12292639577798:0.000655656980759849:0.00536815298005471!TBP#6908;24:1.74436267628065:0.00168670460612829:0.0105414243527876!TCF7L2#6934;22:4.6459585174318:2.05348659643253e-10:2.11921034234009e-08 | |tf_chipseq_enrich=EP300#2033;20:2.6564477357738:1.75997255871597e-05:0.000401945711917204!FOXA1#3169;19:4.12837206349654:3.93374019712564e-08:2.60352276582766e-06!FOXA2#3170;15:7.24425404490154:1.05161906223155e-09:9.7023006396114e-08!HDAC2#3066;17:4.47187341220875:8.39452033032538e-08:5.00122823034143e-06!HEY1#23462;31:2.45575377129955:5.21144946570844e-08:3.3228239972474e-06!HNF4A#3172;17:7.7107634543179:2.27901291498016e-11:2.72020376945844e-09!HNF4G#3174;14:7.89309637980892:1.4330301822606e-09:1.2813719110027e-07!NANOG#79923;6:3.44056217423678:0.00769433453761776:0.0316859983744435!RXRA#6256;13:5.11705927075946:9.189144886148e-07:3.94615585018261e-05!SETDB1#9869;5:3.9529437429422:0.0085432049896719:0.0325612650870864!SIN3A#25942;19:2.01507470214682:0.0012625345056148:0.00847633332681306!SP1#6667;19:2.12292639577798:0.000655656980759849:0.00536815298005471!TBP#6908;24:1.74436267628065:0.00168670460612829:0.0105414243527876!TCF7L2#6934;22:4.6459585174318:2.05348659643253e-10:2.11921034234009e-08 | ||
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| ||
|tfbs_overrepresentation_for_novel_motifs=0.481682,0.395301,1.0091,0.140783,0.029641,0.591716,0.460917,0.316884,0.877473,0.961421,0.822353,0.256585,0.598193,0.439327,0.797368,0.405029,0.48452,0.219455,1.71438,0.556191,0.129198,1.65108,0.313076,0.18453,0.598303,0.996932,0.84642,0.131203,0.562323,1.98043,0.244727,1.02847,0.42897,0.611982,0.432084,0.268265,0.421678,0.32769,1.32631,0.151226,0.0603441,0.423786,0.836573,0.339491,0.372808,0.551549,0.462982,0.784614,0.459565,0.355091,1.04071,0.223593,0.756162,0.231144,0.3402,0.444797,0.578264,0.170052,0.270106,0.169121,0.207824,0.0589178,0.656188,0.445818,0.502107,0.126911,0.409209,0.727856,0.176167,0.58255,0.203487,0.207894,1.13495,0.338683,0.172853,1.10888,1.21892,0.422759,0.174236,0.578991,0.230583,0.872544,0.501417,0.487251,0.812737,2.34389,0.0041377,0.681044,0.677095,1.91699,0.485902,0.768577,0.192665,0.0848745,0.553813,0.194711,0.483682,0.219696,0.102812,0.29341,0.538347,0.55395,2.55647,0.162843,0.384166,0.503808,0.46739,0.432928,0.597506,0.307151,0.753591,0.214289,0.687351,0.292225,0.446027,0.416569,0.489736,0.242979,0.790676,0.673899,0.332425,0.0995563,1.32067,0.244408,0.539181,0.837705,0.0555538,0.19576,0.365014,0.333564,0.281458,0.248918,0.376217,0.240788,0.496746,0.227451,0.0950578,0.310482,0.461248,1.25501,0.868564,0.430601,0.452197,0.217405,0.386463,0.0419814,0.364875,1.10041,0.0859308,0.284107,0.172001,0.12972,0.770319,0.283234,0.213312,0.609476,0.642433,0.076866,0.0150478,0.0545312,0.429612,1.35928,0.17377,0.790009,0.130191,0.231403,0.805521,0.208912,1.18017 | |||
}} | }} |
Revision as of 13:57, 26 November 2012
Full id: C258_hepatoblastoma_hepatocellular_signet_colon_Intestinal_Prostate_gastric
Phase1 CAGE Peaks
Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data
p.value | FDR | nGenes | nPathway | Name |
---|---|---|---|---|
6.75939345257143e-05 | 0.0213934802773886 | 2 | 22 | Hedgehog Signaling Pathway (Wikipathways):WP47 |
2.28911878907859e-05 | 0.0144901219348675 | 2 | 13 | {SHH,13} (Static Module):NA |
Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data
GO ID | GO name | FDR corrected p-value |
---|---|---|
GO:0030908 | protein splicing | 1.43290871993427e-05 |
GO:0005113 | patched binding | 1.43290871993427e-05 |
GO:0016539 | intein-mediated protein splicing | 1.43290871993427e-05 |
GO:0001569 | patterning of blood vessels | 0.000590135915578549 |
GO:0001649 | osteoblast differentiation | 0.0023106754995096 |
GO:0009880 | embryonic pattern specification | 0.0023106754995096 |
GO:0048754 | branching morphogenesis of a tube | 0.0023106754995096 |
GO:0001763 | morphogenesis of a branching structure | 0.00265112393578677 |
GO:0045597 | positive regulation of cell differentiation | 0.00512236837715217 |
GO:0045596 | negative regulation of cell differentiation | 0.00671357578165101 |
GO:0051094 | positive regulation of developmental process | 0.00671357578165101 |
GO:0051093 | negative regulation of developmental process | 0.00671357578165101 |
GO:0045581 | negative regulation of T cell differentiation | 0.00671357578165101 |
GO:0060020 | Bergmann glial cell differentiation | 0.00671357578165101 |
GO:0060019 | radial glial cell differentiation | 0.00671357578165101 |
GO:0007227 | signal transduction downstream of smoothened | 0.00671357578165101 |
GO:0008812 | choline dehydrogenase activity | 0.00671357578165101 |
GO:0032435 | negative regulation of proteasomal ubiquitin-dependent protein catabolic process | 0.00671357578165101 |
GO:0046639 | negative regulation of alpha-beta T cell differentiation | 0.00671357578165101 |
GO:0007228 | activation of hh target transcription factor | 0.00671357578165101 |
GO:0046636 | negative regulation of alpha-beta T cell activation | 0.00671357578165101 |
GO:0035239 | tube morphogenesis | 0.00671357578165101 |
GO:0001503 | ossification | 0.00675309757192503 |
GO:0031214 | biomineral formation | 0.00675309757192503 |
GO:0046849 | bone remodeling | 0.00771175918377515 |
GO:0016485 | protein processing | 0.00788417781018163 |
GO:0048771 | tissue remodeling | 0.00789246122939799 |
GO:0005615 | extracellular space | 0.00789246122939799 |
GO:0035295 | tube development | 0.00789246122939799 |
GO:0043587 | tongue morphogenesis | 0.00789246122939799 |
GO:0046637 | regulation of alpha-beta T cell differentiation | 0.00789246122939799 |
GO:0043586 | tongue development | 0.00789246122939799 |
GO:0007435 | salivary gland morphogenesis | 0.00789246122939799 |
GO:0022612 | gland morphogenesis | 0.00789246122939799 |
GO:0043237 | laminin-1 binding | 0.00789246122939799 |
GO:0021978 | telencephalon regionalization | 0.00789246122939799 |
GO:0032332 | positive regulation of chondrocyte differentiation | 0.00789246122939799 |
GO:0007389 | pattern specification process | 0.00844294278441691 |
GO:0001525 | angiogenesis | 0.00864675372337077 |
GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 0.00864675372337077 |
GO:0045595 | regulation of cell differentiation | 0.00864675372337077 |
GO:0030850 | prostate gland development | 0.00864675372337077 |
GO:0045666 | positive regulation of neuron differentiation | 0.00864675372337077 |
GO:0021937 | Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation | 0.00864675372337077 |
GO:0032434 | regulation of proteasomal ubiquitin-dependent protein catabolic process | 0.00864675372337077 |
GO:0043236 | laminin binding | 0.00864675372337077 |
GO:0021938 | smoothened signaling pathway in regulation of granule cell precursor cell proliferation | 0.00864675372337077 |
GO:0008519 | ammonium transmembrane transporter activity | 0.00864675372337077 |
GO:0007418 | ventral midline development | 0.00864675372337077 |
GO:0015696 | ammonium transport | 0.00864675372337077 |
GO:0006366 | transcription from RNA polymerase II promoter | 0.00864675372337077 |
GO:0048514 | blood vessel morphogenesis | 0.00864675372337077 |
GO:0048646 | anatomical structure formation | 0.00871448100720144 |
GO:0001568 | blood vessel development | 0.00871448100720144 |
GO:0001944 | vasculature development | 0.00871448100720144 |
GO:0007439 | ectodermal gut development | 0.00871448100720144 |
GO:0045620 | negative regulation of lymphocyte differentiation | 0.00871448100720144 |
GO:0021513 | spinal cord dorsal/ventral patterning | 0.00871448100720144 |
GO:0002052 | positive regulation of neuroblast proliferation | 0.00871448100720144 |
GO:0021871 | forebrain regionalization | 0.00871448100720144 |
GO:0050840 | extracellular matrix binding | 0.00871448100720144 |
GO:0007442 | hindgut morphogenesis | 0.00871448100720144 |
GO:0032330 | regulation of chondrocyte differentiation | 0.00871448100720144 |
GO:0046634 | regulation of alpha-beta T cell activation | 0.00871448100720144 |
GO:0048567 | ectodermal gut morphogenesis | 0.00871448100720144 |
GO:0007431 | salivary gland development | 0.00871448100720144 |
GO:0002076 | osteoblast development | 0.00871448100720144 |
GO:0048547 | gut morphogenesis | 0.00923709333081289 |
GO:0048546 | digestive tract morphogenesis | 0.00923709333081289 |
GO:0021930 | granule cell precursor proliferation | 0.00923709333081289 |
GO:0021940 | positive regulation of granule cell precursor proliferation | 0.00923709333081289 |
GO:0004308 | exo-alpha-sialidase activity | 0.00923709333081289 |
GO:0004594 | pantothenate kinase activity | 0.00923709333081289 |
GO:0048678 | response to axon injury | 0.00923709333081289 |
GO:0021534 | cell proliferation in hindbrain | 0.00923709333081289 |
GO:0016997 | alpha-sialidase activity | 0.00923709333081289 |
GO:0021511 | spinal cord patterning | 0.00923709333081289 |
GO:0021924 | cell proliferation in the external granule layer | 0.00923709333081289 |
GO:0021936 | regulation of granule cell precursor proliferation | 0.00923709333081289 |
GO:0042177 | negative regulation of protein catabolic process | 0.0109443447133047 |
GO:0001501 | skeletal development | 0.0111212779342219 |
GO:0015937 | coenzyme A biosynthetic process | 0.0120391285321079 |
GO:0030856 | regulation of epithelial cell differentiation | 0.0120391285321079 |
GO:0031069 | hair follicle morphogenesis | 0.0120391285321079 |
GO:0045893 | positive regulation of transcription, DNA-dependent | 0.0120391285321079 |
GO:0008284 | positive regulation of cell proliferation | 0.012548959196457 |
GO:0009790 | embryonic development | 0.012548959196457 |
GO:0050793 | regulation of developmental process | 0.012548959196457 |
GO:0035272 | exocrine system development | 0.012548959196457 |
GO:0014003 | oligodendrocyte development | 0.012548959196457 |
GO:0042130 | negative regulation of T cell proliferation | 0.012548959196457 |
GO:0030901 | midbrain development | 0.012548959196457 |
GO:0042733 | embryonic digit morphogenesis | 0.012548959196457 |
GO:0044421 | extracellular region part | 0.0129107769170461 |
GO:0009895 | negative regulation of catabolic process | 0.0133953229826029 |
GO:0002062 | chondrocyte differentiation | 0.0133953229826029 |
GO:0030539 | male genitalia development | 0.0133953229826029 |
GO:0015695 | organic cation transport | 0.0133953229826029 |
GO:0015101 | organic cation transmembrane transporter activity | 0.0138894019342398 |
GO:0001755 | neural crest cell migration | 0.0138894019342398 |
GO:0000015 | phosphopyruvate hydratase complex | 0.0138894019342398 |
GO:0001658 | ureteric bud branching | 0.0138894019342398 |
GO:0045580 | regulation of T cell differentiation | 0.0138894019342398 |
GO:0021510 | spinal cord development | 0.0138894019342398 |
GO:0004634 | phosphopyruvate hydratase activity | 0.0138894019342398 |
GO:0045941 | positive regulation of transcription | 0.0140700865705134 |
GO:0005737 | cytoplasm | 0.0140700865705134 |
GO:0048565 | gut development | 0.0140700865705134 |
GO:0050868 | negative regulation of T cell activation | 0.0140700865705134 |
GO:0015936 | coenzyme A metabolic process | 0.0140700865705134 |
GO:0050672 | negative regulation of lymphocyte proliferation | 0.0140700865705134 |
GO:0008209 | androgen metabolic process | 0.0140700865705134 |
GO:0048709 | oligodendrocyte differentiation | 0.0140700865705134 |
GO:0032945 | negative regulation of mononuclear cell proliferation | 0.0140700865705134 |
GO:0045935 | positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 0.0147871953746878 |
GO:0048806 | genitalia development | 0.0150823246680163 |
GO:0044424 | intracellular part | 0.0156492155543383 |
GO:0009888 | tissue development | 0.0159249293429539 |
GO:0021782 | glial cell development | 0.0159249293429539 |
GO:0014032 | neural crest cell development | 0.0165897615557974 |
GO:0007224 | smoothened signaling pathway | 0.0165897615557974 |
GO:0048663 | neuron fate commitment | 0.0165897615557974 |
GO:0014033 | neural crest cell differentiation | 0.0165897615557974 |
GO:0001708 | cell fate specification | 0.0176288057379137 |
GO:0019866 | organelle inner membrane | 0.01772162535577 |
GO:0051146 | striated muscle cell differentiation | 0.0179335409506194 |
GO:0001839 | neural plate morphogenesis | 0.0179335409506194 |
GO:0045619 | regulation of lymphocyte differentiation | 0.0179335409506194 |
GO:0046632 | alpha-beta T cell differentiation | 0.0179335409506194 |
GO:0001841 | neural tube formation | 0.0179335409506194 |
GO:0030162 | regulation of proteolysis | 0.0180781453938118 |
GO:0001840 | neural plate development | 0.0180781453938118 |
GO:0007405 | neuroblast proliferation | 0.0180781453938118 |
GO:0008907 | integrase activity | 0.0180781453938118 |
GO:0042176 | regulation of protein catabolic process | 0.0180781453938118 |
GO:0015485 | cholesterol binding | 0.0180781453938118 |
GO:0001838 | embryonic epithelial tube formation | 0.0180781453938118 |
GO:0050679 | positive regulation of epithelial cell proliferation | 0.0181778094461828 |
GO:0022404 | molting cycle process | 0.0181778094461828 |
GO:0001942 | hair follicle development | 0.0181778094461828 |
GO:0022405 | hair cycle process | 0.0181778094461828 |
GO:0042633 | hair cycle | 0.0181778094461828 |
GO:0042303 | molting cycle | 0.0181778094461828 |
GO:0001570 | vasculogenesis | 0.0181778094461828 |
GO:0009887 | organ morphogenesis | 0.0181778094461828 |
GO:0031325 | positive regulation of cellular metabolic process | 0.0182057151642484 |
GO:0001657 | ureteric bud development | 0.0182057151642484 |
GO:0021915 | neural tube development | 0.0182057151642484 |
GO:0042475 | odontogenesis of dentine-containing teeth | 0.0182057151642484 |
GO:0046631 | alpha-beta T cell activation | 0.0182057151642484 |
GO:0030336 | negative regulation of cell migration | 0.0182057151642484 |
GO:0051250 | negative regulation of lymphocyte activation | 0.0182057151642484 |
GO:0048568 | embryonic organ development | 0.0190358556751456 |
GO:0009893 | positive regulation of metabolic process | 0.0198696412915676 |
GO:0016331 | morphogenesis of embryonic epithelium | 0.0206631744665421 |
GO:0051271 | negative regulation of cell motility | 0.0211891200991955 |
GO:0030902 | hindbrain development | 0.0211891200991955 |
GO:0043161 | proteasomal ubiquitin-dependent protein catabolic process | 0.0211891200991955 |
GO:0040013 | negative regulation of locomotion | 0.0215612788377167 |
GO:0014031 | mesenchymal cell development | 0.0215612788377167 |
GO:0048762 | mesenchymal cell differentiation | 0.0215612788377167 |
GO:0001656 | metanephros development | 0.0215612788377167 |
GO:0006357 | regulation of transcription from RNA polymerase II promoter | 0.021851444770121 |
GO:0042476 | odontogenesis | 0.0220480644954898 |
GO:0009894 | regulation of catabolic process | 0.0220480644954898 |
GO:0046546 | development of primary male sexual characteristics | 0.0226520442942366 |
GO:0045664 | regulation of neuron differentiation | 0.0226520442942366 |
GO:0006066 | alcohol metabolic process | 0.0232414760306504 |
GO:0032934 | sterol binding | 0.0232414760306504 |
GO:0009953 | dorsal/ventral pattern formation | 0.0239569694659131 |
GO:0010001 | glial cell differentiation | 0.0246638449621801 |
GO:0042127 | regulation of cell proliferation | 0.0250707327498834 |
GO:0051091 | positive regulation of transcription factor activity | 0.0250707327498834 |
GO:0050678 | regulation of epithelial cell proliferation | 0.0250707327498834 |
GO:0044464 | cell part | 0.0256034667782936 |
GO:0015074 | DNA integration | 0.0256082661952266 |
GO:0044444 | cytoplasmic part | 0.0260858782406668 |
GO:0046661 | male sex differentiation | 0.0261334806487915 |
GO:0030326 | embryonic limb morphogenesis | 0.0264995669898537 |
GO:0035113 | embryonic appendage morphogenesis | 0.0264995669898537 |
GO:0050673 | epithelial cell proliferation | 0.0264995669898537 |
GO:0043010 | camera-type eye development | 0.0270002244300642 |
GO:0042129 | regulation of T cell proliferation | 0.0270002244300642 |
GO:0001822 | kidney development | 0.0278478952098251 |
GO:0042063 | gliogenesis | 0.0278478952098251 |
GO:0051216 | cartilage development | 0.0278478952098251 |
GO:0030855 | epithelial cell differentiation | 0.0278478952098251 |
GO:0044265 | cellular macromolecule catabolic process | 0.0278478952098251 |
GO:0060173 | limb development | 0.0278478952098251 |
GO:0035107 | appendage morphogenesis | 0.0278478952098251 |
GO:0035108 | limb morphogenesis | 0.0278478952098251 |
GO:0048589 | developmental growth | 0.0278478952098251 |
GO:0048736 | appendage development | 0.0278478952098251 |
GO:0042098 | T cell proliferation | 0.0291932955248312 |
GO:0001655 | urogenital system development | 0.0297839142040696 |
GO:0030217 | T cell differentiation | 0.0303682890953978 |
GO:0032944 | regulation of mononuclear cell proliferation | 0.0306354950844985 |
GO:0050670 | regulation of lymphocyte proliferation | 0.0306354950844985 |
GO:0030324 | lung development | 0.0306354950844985 |
GO:0030323 | respiratory tube development | 0.0312034992921382 |
GO:0005622 | intracellular | 0.0312278993165916 |
GO:0048469 | cell maturation | 0.0323220049963033 |
GO:0030900 | forebrain development | 0.032393950708822 |
GO:0045121 | lipid raft | 0.032393950708822 |
GO:0042692 | muscle cell differentiation | 0.032393950708822 |
GO:0048732 | gland development | 0.032393950708822 |
GO:0001654 | eye development | 0.0329334309438586 |
GO:0031967 | organelle envelope | 0.0357199774192478 |
GO:0031975 | envelope | 0.0357199774192478 |
GO:0009057 | macromolecule catabolic process | 0.0357199774192478 |
GO:0051090 | regulation of transcription factor activity | 0.0357199774192478 |
GO:0032943 | mononuclear cell proliferation | 0.0358912475091553 |
GO:0046651 | lymphocyte proliferation | 0.0358912475091553 |
GO:0021700 | developmental maturation | 0.0358912475091553 |
GO:0007267 | cell-cell signaling | 0.0365271080616658 |
GO:0048730 | epidermis morphogenesis | 0.0367199227902124 |
GO:0009952 | anterior/posterior pattern formation | 0.0367199227902124 |
GO:0006355 | regulation of transcription, DNA-dependent | 0.0368192780603154 |
GO:0007411 | axon guidance | 0.0370406749543051 |
GO:0050863 | regulation of T cell activation | 0.0388304880886745 |
GO:0045137 | development of primary sexual characteristics | 0.0390393505072002 |
GO:0030334 | regulation of cell migration | 0.0390393505072002 |
GO:0006351 | transcription, DNA-dependent | 0.0390393505072002 |
GO:0032774 | RNA biosynthetic process | 0.0390575131274154 |
GO:0002009 | morphogenesis of an epithelium | 0.0405178409584665 |
GO:0030098 | lymphocyte differentiation | 0.0409728326599113 |
GO:0051270 | regulation of cell motility | 0.0439469432088522 |
GO:0045165 | cell fate commitment | 0.045009205564013 |
GO:0048729 | tissue morphogenesis | 0.0452313172019513 |
GO:0040012 | regulation of locomotion | 0.0452313172019513 |
GO:0008283 | cell proliferation | 0.0452313172019513 |
GO:0040011 | locomotion | 0.0454658312192687 |
GO:0045449 | regulation of transcription | 0.0458650075863592 |
GO:0051249 | regulation of lymphocyte activation | 0.046909049259456 |
GO:0044237 | cellular metabolic process | 0.046986142197881 |
GO:0019219 | regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 0.0477818211711771 |
GO:0050865 | regulation of cell activation | 0.0487242778783049 |
GO:0007548 | sex differentiation | 0.0491188347581561 |
Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>
Ontology term | p-value | n |
---|---|---|
metabolising cell | 4.39e-21 | 12 |
endopolyploid cell | 4.39e-21 | 12 |
parenchymal cell | 4.39e-21 | 12 |
polyploid cell | 4.39e-21 | 12 |
hepatocyte | 4.39e-21 | 12 |
intestinal epithelial cell | 2.64e-16 | 4 |
embryonic stem cell | 4.39e-13 | 5 |
endodermal cell | 1.23e-12 | 58 |
epithelial cell of large intestine | 5.94e-09 | 2 |
melanocyte | 5.43e-07 | 10 |
melanoblast | 5.43e-07 | 10 |
Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data
Novel motifs
JASPAR motifs
Motifs | -log10(p-value) |
---|---|
{{{tfbs_overrepresentation_jaspar}}} |
ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data
(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)
TF | #promoters | Enrichment | p-value | q-value |
---|---|---|---|---|
EP300#2033 | 20 | 2.6564477357738 | 1.75997255871597e-05 | 0.000401945711917204 |
FOXA1#3169 | 19 | 4.12837206349654 | 3.93374019712564e-08 | 2.60352276582766e-06 |
FOXA2#3170 | 15 | 7.24425404490154 | 1.05161906223155e-09 | 9.7023006396114e-08 |
HDAC2#3066 | 17 | 4.47187341220875 | 8.39452033032538e-08 | 5.00122823034143e-06 |
HEY1#23462 | 31 | 2.45575377129955 | 5.21144946570844e-08 | 3.3228239972474e-06 |
HNF4A#3172 | 17 | 7.7107634543179 | 2.27901291498016e-11 | 2.72020376945844e-09 |
HNF4G#3174 | 14 | 7.89309637980892 | 1.4330301822606e-09 | 1.2813719110027e-07 |
NANOG#79923 | 6 | 3.44056217423678 | 0.00769433453761776 | 0.0316859983744435 |
RXRA#6256 | 13 | 5.11705927075946 | 9.189144886148e-07 | 3.94615585018261e-05 |
SETDB1#9869 | 5 | 3.9529437429422 | 0.0085432049896719 | 0.0325612650870864 |
SIN3A#25942 | 19 | 2.01507470214682 | 0.0012625345056148 | 0.00847633332681306 |
SP1#6667 | 19 | 2.12292639577798 | 0.000655656980759849 | 0.00536815298005471 |
TBP#6908 | 24 | 1.74436267628065 | 0.00168670460612829 | 0.0105414243527876 |
TCF7L2#6934 | 22 | 4.6459585174318 | 2.05348659643253e-10 | 2.11921034234009e-08 |
Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data