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Coexpression cluster:C185

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Full id: C185_small_adrenal_gastric_Mesenchymal_acute_HES3GFP_testis



Phase1 CAGE Peaks

Hg19::chr10:121863383..121863387,-p@chr10:121863383..121863387
-
Hg19::chr10:121863435..121863446,-p@chr10:121863435..121863446
-
Hg19::chr10:133457602..133457623,+p@chr10:133457602..133457623
+
Hg19::chr10:36850273..36850276,-p@chr10:36850273..36850276
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Hg19::chr10:66459172..66459188,-p@chr10:66459172..66459188
-
Hg19::chr10:67571401..67571408,-p@chr10:67571401..67571408
-
Hg19::chr11:102647098..102647117,-p@chr11:102647098..102647117
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Hg19::chr11:31093041..31093047,-p@chr11:31093041..31093047
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Hg19::chr11:31171048..31171052,+p@chr11:31171048..31171052
+
Hg19::chr11:31391345..31391358,+p3@DNAJC24
Hg19::chr11:31832461..31832468,-p20@PAX6
Hg19::chr11:67351250..67351261,+p2@GSTP1
Hg19::chr11:68519026..68519037,-p5@MTL5
Hg19::chr11:76973897..76973898,-p@chr11:76973897..76973898
-
Hg19::chr12:88178319..88178329,-p2@MKRN9P
Hg19::chr13:104517168..104517170,+p@chr13:104517168..104517170
+
Hg19::chr13:92569013..92569022,-p@chr13:92569013..92569022
-
Hg19::chr13:92571088..92571098,-p@chr13:92571088..92571098
-
Hg19::chr13:92571252..92571265,-p@chr13:92571252..92571265
-
Hg19::chr15:36739964..36739979,-p@chr15:36739964..36739979
-
Hg19::chr15:96903700..96903704,+p@chr15:96903700..96903704
+
Hg19::chr15:96959907..96959930,+p@chr15:96959907..96959930
+
Hg19::chr15:97503439..97503472,+p@chr15:97503439..97503472
+
Hg19::chr15:97554594..97554599,-p@chr15:97554594..97554599
-
Hg19::chr15:97777487..97777525,+p@chr15:97777487..97777525
+
Hg19::chr15:97779038..97779056,+p@chr15:97779038..97779056
+
Hg19::chr16:84424157..84424178,-p@chr16:84424157..84424178
-
Hg19::chr17:58979826..58979836,+p@chr17:58979826..58979836
+
Hg19::chr1:47881953..47881958,+p1@FOXE3
Hg19::chr1:63789403..63789435,-p1@ENST00000431294
Hg19::chr1:81686906..81686911,+p@chr1:81686906..81686911
+
Hg19::chr1:81771995..81772012,+p4@LPHN2
Hg19::chr1:81772013..81772038,+p10@LPHN2
Hg19::chr1:81772072..81772104,+p3@LPHN2
Hg19::chr1:81772113..81772122,+p17@LPHN2
Hg19::chr20:50722573..50722580,-p18@ZFP64
Hg19::chr20:52871134..52871139,-p@chr20:52871134..52871139
-
Hg19::chr21:16662950..16662957,-p@chr21:16662950..16662957
-
Hg19::chr21:26144899..26144920,-p@chr21:26144899..26144920
-
Hg19::chr21:26151976..26151979,+p@chr21:26151976..26151979
+
Hg19::chr2:189756256..189756260,+p@chr2:189756256..189756260
+
Hg19::chr2:200324103..200324118,-p@chr2:200324103..200324118
-
Hg19::chr3:102157364..102157394,+p@chr3:102157364..102157394
+
Hg19::chr3:177715091..177715094,+p@chr3:177715091..177715094
+
Hg19::chr3:78334430..78334433,-p@chr3:78334430..78334433
-
Hg19::chr3:78360347..78360353,+p@chr3:78360347..78360353
+
Hg19::chr3:78360522..78360543,+p@chr3:78360522..78360543
+
Hg19::chr3:78666867..78666875,-p43@ROBO1
Hg19::chr3:78684981..78684990,-p@chr3:78684981..78684990
-
Hg19::chr3:78685050..78685061,-p@chr3:78685050..78685061
-
Hg19::chr3:86289712..86289720,+p@chr3:86289712..86289720
+
Hg19::chr3:86701885..86701893,-p@chr3:86701885..86701893
-
Hg19::chr3:86701902..86701920,-p@chr3:86701902..86701920
-
Hg19::chr3:86701921..86701925,-p@chr3:86701921..86701925
-
Hg19::chr3:86703134..86703137,-p@chr3:86703134..86703137
-
Hg19::chr3:86703154..86703166,-p@chr3:86703154..86703166
-
Hg19::chr3:86703174..86703181,-p@chr3:86703174..86703181
-
Hg19::chr4:145430439..145430458,-p@chr4:145430439..145430458
-
Hg19::chr4:157516018..157516023,+p@chr4:157516018..157516023
+
Hg19::chr4:160188990..160189002,+p16@RAPGEF2
Hg19::chr4:160189041..160189050,+p37@RAPGEF2
Hg19::chr4:160189282..160189289,+p38@RAPGEF2
Hg19::chr4:183370111..183370118,+p12@ODZ3
Hg19::chr4:20482109..20482123,+p@chr4:20482109..20482123
+
Hg19::chr5:103559627..103559633,-p@chr5:103559627..103559633
-
Hg19::chr5:103559757..103559775,+p@chr5:103559757..103559775
+
Hg19::chr5:124228937..124228942,+p@chr5:124228937..124228942
+
Hg19::chr5:50262633..50262637,+p@chr5:50262633..50262637
+
Hg19::chr5:80703757..80703760,-p1@AK054959
Hg19::chr5:91378410..91378419,+p1@ENST00000507217
Hg19::chr6:10074344..10074351,-p@chr6:10074344..10074351
-
Hg19::chr6:121655552..121655592,-p4@C6orf170
Hg19::chr6:122403849..122403854,-p@chr6:122403849..122403854
-
Hg19::chr6:122720681..122720713,+p3@HSF2
Hg19::chr6:129513919..129513922,+p@chr6:129513919..129513922
+
Hg19::chr6:140771120..140771128,+p@chr6:140771120..140771128
+
Hg19::chr6:141460346..141460355,+p@chr6:141460346..141460355
+
Hg19::chr6:141715304..141715307,+p@chr6:141715304..141715307
+
Hg19::chr6:64762702..64762707,+p@chr6:64762702..64762707
+
Hg19::chr7:84390545..84390550,+p@chr7:84390545..84390550
+
Hg19::chr7:84651769..84651772,-p@chr7:84651769..84651772
-
Hg19::chr7:84651785..84651813,-p@chr7:84651785..84651813
-
Hg19::chr7:84651827..84651832,-p@chr7:84651827..84651832
-
Hg19::chr7:85204085..85204091,+p@chr7:85204085..85204091
+
Hg19::chr8:116215298..116215305,+p@chr8:116215298..116215305
+
Hg19::chr8:116215335..116215378,+p@chr8:116215335..116215378
+
Hg19::chr8:116215608..116215615,+p@chr8:116215608..116215615
+
Hg19::chr8:116342361..116342367,-p@chr8:116342361..116342367
-
Hg19::chr8:39626720..39626725,-p@chr8:39626720..39626725
-
Hg19::chr8:39626962..39626971,-p@chr8:39626962..39626971
-
Hg19::chr8:72268870..72268881,-p14@EYA1
Hg19::chr8:72275738..72275747,-p@chr8:72275738..72275747
-


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

No results for this coexpression

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 IDGO nameFDR corrected p-value
GO:0050789regulation of biological process0.000458795039529669
GO:0065007biological regulation0.000553884666389028
GO:0050794regulation of cellular process0.00127516109800752
GO:0048468cell development0.00278361111199754
GO:0007275multicellular organismal development0.00332281962766397
GO:0050767regulation of neurogenesis0.0035795823346943
GO:0001654eye development0.00470965243789605
GO:0048869cellular developmental process0.00737243277292247
GO:0030154cell differentiation0.00737243277292247
GO:0021902commitment of a neuronal cell to a specific type of neuron in the forebrain0.00850905713084782
GO:0021877forebrain neuron fate commitment0.00850905713084782
GO:0048856anatomical structure development0.00850905713084782
GO:0007423sensory organ development0.00850905713084782
GO:0032502developmental process0.00923177719143751
GO:0021879forebrain neuron differentiation0.00923177719143751
GO:0021872generation of neurons in the forebrain0.00923177719143751
GO:0007435salivary gland morphogenesis0.00923177719143751
GO:0021798forebrain dorsal/ventral pattern formation0.00923177719143751
GO:0022612gland morphogenesis0.00923177719143751
GO:0017034Rap guanyl-nucleotide exchange factor activity0.00923177719143751
GO:0007409axonogenesis0.00923177719143751
GO:0048667neuron morphogenesis during differentiation0.00933276653822271
GO:0048812neurite morphogenesis0.00933276653822271
GO:0000904cellular morphogenesis during differentiation0.00985299067544778
GO:0031175neurite development0.0101773567457619
GO:0032501multicellular organismal process0.0101773567457619
GO:0008046axon guidance receptor activity0.0101773567457619
GO:0046582Rap GTPase activator activity0.0101773567457619
GO:0006366transcription from RNA polymerase II promoter0.011727456069104
GO:0048666neuron development0.011727456069104
GO:0021871forebrain regionalization0.0118716606358403
GO:0007431salivary gland development0.0118716606358403
GO:0005099Ras GTPase activator activity0.0122177020141659
GO:0006916anti-apoptosis0.0125778489838491
GO:0009950dorsal/ventral axis specification0.0131602684796476
GO:0007399nervous system development0.0131602684796476
GO:0048731system development0.0131602684796476
GO:0042462eye photoreceptor cell development0.0149346592481628
GO:0032990cell part morphogenesis0.0149346592481628
GO:0048858cell projection morphogenesis0.0149346592481628
GO:0030030cell projection organization and biogenesis0.0149346592481628
GO:0030182neuron differentiation0.015102049704423
GO:0021543pallium development0.015102049704423
GO:0001754eye photoreceptor cell differentiation0.015102049704423
GO:0043066negative regulation of apoptosis0.0161421034391648
GO:0035272exocrine system development0.0161421034391648
GO:0042461photoreceptor cell development0.0161421034391648
GO:0043069negative regulation of programmed cell death0.0161421034391648
GO:0007417central nervous system development0.0162980930955047
GO:0050793regulation of developmental process0.0162980930955047
GO:0043565sequence-specific DNA binding0.0164439799615083
GO:0048699generation of neurons0.0164605709819633
GO:0046530photoreceptor cell differentiation0.0179020907923902
GO:0022008neurogenesis0.0183074205057291
GO:0045665negative regulation of neuron differentiation0.0183074205057291
GO:0021983pituitary gland development0.0183074205057291
GO:0021537telencephalon development0.0183074205057291
GO:0006355regulation of transcription, DNA-dependent0.0190480001083401
GO:0021536diencephalon development0.0192916008186325
GO:0006351transcription, DNA-dependent0.0199047474675831
GO:0050772positive regulation of axonogenesis0.0199047474675831
GO:0032774RNA biosynthetic process0.0199047474675831
GO:0048663neuron fate commitment0.0210710382746756
GO:0009653anatomical structure morphogenesis0.0219125386674463
GO:0048518positive regulation of biological process0.0224492872519066
GO:0050769positive regulation of neurogenesis0.0229791480795575
GO:0044464cell part0.0233525963137908
GO:0045449regulation of transcription0.0234749276947601
GO:0050679positive regulation of epithelial cell proliferation0.0240942342010499
GO:0009798axis specification0.0240942342010499
GO:0019219regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0240942342010499
GO:0005096GTPase activator activity0.0241081661902053
GO:0048523negative regulation of cellular process0.0241679586233096
GO:0006350transcription0.0256288381954396
GO:0010468regulation of gene expression0.0258485786045045
GO:0048519negative regulation of biological process0.0258485786045045
GO:0016524latrotoxin receptor activity0.0280803840498099
GO:0031323regulation of cellular metabolic process0.0280803840498099
GO:0048592eye morphogenesis0.0303769023797294
GO:0050770regulation of axonogenesis0.0303769023797294
GO:0045664regulation of neuron differentiation0.0303769023797294
GO:0009953dorsal/ventral pattern formation0.0323041873562411
GO:0001709cell fate determination0.0325385148482621
GO:0019222regulation of metabolic process0.0325385148482621
GO:0016070RNA metabolic process0.0325385148482621
GO:0050678regulation of epithelial cell proliferation0.0329911108977165
GO:0008047enzyme activator activity0.0334215169677321
GO:0005634nucleus0.0334734779530575
GO:0042127regulation of cell proliferation0.0334734779530575
GO:0050673epithelial cell proliferation0.0334734779530575
GO:0035270endocrine system development0.0334734779530575
GO:0005083small GTPase regulator activity0.0334734779530575
GO:0051056regulation of small GTPase mediated signal transduction0.0334734779530575
GO:0032989cellular structure morphogenesis0.0334734779530575
GO:0000902cell morphogenesis0.0334734779530575
GO:0043010camera-type eye development0.0334734779530575
GO:0010038response to metal ion0.0340972399188216
GO:0001764neuron migration0.0347079612198184
GO:0003700transcription factor activity0.0379919379612352
GO:0010035response to inorganic substance0.0396442858100663
GO:0004364glutathione transferase activity0.0411076048687229
GO:0030900forebrain development0.0421280201981221
GO:0048732gland development0.0421280201981221
GO:0042981regulation of apoptosis0.0429185461111705
GO:0043067regulation of programmed cell death0.0433592482113674
GO:0042221response to chemical stimulus0.0447982881686363
GO:0009952anterior/posterior pattern formation0.0484169636769364
GO:0007411axon guidance0.0488329231328653



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>

Cell Type
Ontology termp-valuen
neural cell1.96e-0825
neurectodermal cell1.58e-0759
Uber Anatomy
Ontology termp-valuen
regional part of nervous system2.49e-2794
nervous system2.49e-2794
central nervous system7.18e-2682
ectoderm4.63e-21173
presumptive ectoderm4.63e-21173
neurectoderm1.28e-2090
neural tube1.60e-2057
neural rod1.60e-2057
future spinal cord1.60e-2057
neural keel1.60e-2057
brain4.38e-2069
future brain4.38e-2069
ectoderm-derived structure7.47e-20169
neural plate2.41e-1986
presumptive neural plate2.41e-1986
regional part of forebrain3.16e-1841
forebrain3.16e-1841
future forebrain3.16e-1841
cerebral hemisphere4.48e-1832
regional part of brain4.81e-1859
gray matter5.76e-1834
brain grey matter5.76e-1834
telencephalon9.11e-1834
anterior neural tube3.19e-1742
regional part of telencephalon3.97e-1733
cerebral cortex5.16e-1525
pallium5.16e-1525
pre-chordal neural plate8.94e-1561
regional part of cerebral cortex1.70e-1422
head2.56e-14123
adult organism2.70e-14115
anterior region of body4.83e-14129
craniocervical region4.83e-14129
neocortex1.97e-1320
multi-tissue structure6.14e-08347
organ part1.62e-07219


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#promotersEnrichmentp-valueq-value
CTBP2#148864.090239152564880.003634225134924690.0183723722767994



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

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