Coexpression cluster:C185

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 -
Hg19::chr10:66459172..66459188,-	p@chr10:66459172..66459188 -
Hg19::chr10:67571401..67571408,-	p@chr10:67571401..67571408 -
Hg19::chr11:102647098..102647117,-	p@chr11:102647098..102647117 -
Hg19::chr11:31093041..31093047,-	p@chr11:31093041..31093047 -
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

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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

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GO ID	GO name	FDR corrected p-value
GO:0050789	regulation of biological process	0.000458795039529669
GO:0065007	biological regulation	0.000553884666389028
GO:0050794	regulation of cellular process	0.00127516109800752
GO:0048468	cell development	0.00278361111199754
GO:0007275	multicellular organismal development	0.00332281962766397
GO:0050767	regulation of neurogenesis	0.0035795823346943
GO:0001654	eye development	0.00470965243789605
GO:0048869	cellular developmental process	0.00737243277292247
GO:0030154	cell differentiation	0.00737243277292247
GO:0021902	commitment of a neuronal cell to a specific type of neuron in the forebrain	0.00850905713084782
GO:0021877	forebrain neuron fate commitment	0.00850905713084782
GO:0048856	anatomical structure development	0.00850905713084782
GO:0007423	sensory organ development	0.00850905713084782
GO:0032502	developmental process	0.00923177719143751
GO:0021879	forebrain neuron differentiation	0.00923177719143751
GO:0021872	generation of neurons in the forebrain	0.00923177719143751
GO:0007435	salivary gland morphogenesis	0.00923177719143751
GO:0021798	forebrain dorsal/ventral pattern formation	0.00923177719143751
GO:0022612	gland morphogenesis	0.00923177719143751
GO:0017034	Rap guanyl-nucleotide exchange factor activity	0.00923177719143751
GO:0007409	axonogenesis	0.00923177719143751
GO:0048667	neuron morphogenesis during differentiation	0.00933276653822271
GO:0048812	neurite morphogenesis	0.00933276653822271
GO:0000904	cellular morphogenesis during differentiation	0.00985299067544778
GO:0031175	neurite development	0.0101773567457619
GO:0032501	multicellular organismal process	0.0101773567457619
GO:0008046	axon guidance receptor activity	0.0101773567457619
GO:0046582	Rap GTPase activator activity	0.0101773567457619
GO:0006366	transcription from RNA polymerase II promoter	0.011727456069104
GO:0048666	neuron development	0.011727456069104
GO:0021871	forebrain regionalization	0.0118716606358403
GO:0007431	salivary gland development	0.0118716606358403
GO:0005099	Ras GTPase activator activity	0.0122177020141659
GO:0006916	anti-apoptosis	0.0125778489838491
GO:0009950	dorsal/ventral axis specification	0.0131602684796476
GO:0007399	nervous system development	0.0131602684796476
GO:0048731	system development	0.0131602684796476
GO:0042462	eye photoreceptor cell development	0.0149346592481628
GO:0032990	cell part morphogenesis	0.0149346592481628
GO:0048858	cell projection morphogenesis	0.0149346592481628
GO:0030030	cell projection organization and biogenesis	0.0149346592481628
GO:0030182	neuron differentiation	0.015102049704423
GO:0021543	pallium development	0.015102049704423
GO:0001754	eye photoreceptor cell differentiation	0.015102049704423
GO:0043066	negative regulation of apoptosis	0.0161421034391648
GO:0035272	exocrine system development	0.0161421034391648
GO:0042461	photoreceptor cell development	0.0161421034391648
GO:0043069	negative regulation of programmed cell death	0.0161421034391648
GO:0007417	central nervous system development	0.0162980930955047
GO:0050793	regulation of developmental process	0.0162980930955047
GO:0043565	sequence-specific DNA binding	0.0164439799615083
GO:0048699	generation of neurons	0.0164605709819633
GO:0046530	photoreceptor cell differentiation	0.0179020907923902
GO:0022008	neurogenesis	0.0183074205057291
GO:0045665	negative regulation of neuron differentiation	0.0183074205057291
GO:0021983	pituitary gland development	0.0183074205057291
GO:0021537	telencephalon development	0.0183074205057291
GO:0006355	regulation of transcription, DNA-dependent	0.0190480001083401
GO:0021536	diencephalon development	0.0192916008186325
GO:0006351	transcription, DNA-dependent	0.0199047474675831
GO:0050772	positive regulation of axonogenesis	0.0199047474675831
GO:0032774	RNA biosynthetic process	0.0199047474675831
GO:0048663	neuron fate commitment	0.0210710382746756
GO:0009653	anatomical structure morphogenesis	0.0219125386674463
GO:0048518	positive regulation of biological process	0.0224492872519066
GO:0050769	positive regulation of neurogenesis	0.0229791480795575
GO:0044464	cell part	0.0233525963137908
GO:0045449	regulation of transcription	0.0234749276947601
GO:0050679	positive regulation of epithelial cell proliferation	0.0240942342010499
GO:0009798	axis specification	0.0240942342010499
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0240942342010499
GO:0005096	GTPase activator activity	0.0241081661902053
GO:0048523	negative regulation of cellular process	0.0241679586233096
GO:0006350	transcription	0.0256288381954396
GO:0010468	regulation of gene expression	0.0258485786045045
GO:0048519	negative regulation of biological process	0.0258485786045045
GO:0016524	latrotoxin receptor activity	0.0280803840498099
GO:0031323	regulation of cellular metabolic process	0.0280803840498099
GO:0048592	eye morphogenesis	0.0303769023797294
GO:0050770	regulation of axonogenesis	0.0303769023797294
GO:0045664	regulation of neuron differentiation	0.0303769023797294
GO:0009953	dorsal/ventral pattern formation	0.0323041873562411
GO:0001709	cell fate determination	0.0325385148482621
GO:0019222	regulation of metabolic process	0.0325385148482621
GO:0016070	RNA metabolic process	0.0325385148482621
GO:0050678	regulation of epithelial cell proliferation	0.0329911108977165
GO:0008047	enzyme activator activity	0.0334215169677321
GO:0005634	nucleus	0.0334734779530575
GO:0042127	regulation of cell proliferation	0.0334734779530575
GO:0050673	epithelial cell proliferation	0.0334734779530575
GO:0035270	endocrine system development	0.0334734779530575
GO:0005083	small GTPase regulator activity	0.0334734779530575
GO:0051056	regulation of small GTPase mediated signal transduction	0.0334734779530575
GO:0032989	cellular structure morphogenesis	0.0334734779530575
GO:0000902	cell morphogenesis	0.0334734779530575
GO:0043010	camera-type eye development	0.0334734779530575
GO:0010038	response to metal ion	0.0340972399188216
GO:0001764	neuron migration	0.0347079612198184
GO:0003700	transcription factor activity	0.0379919379612352
GO:0010035	response to inorganic substance	0.0396442858100663
GO:0004364	glutathione transferase activity	0.0411076048687229
GO:0030900	forebrain development	0.0421280201981221
GO:0048732	gland development	0.0421280201981221
GO:0042981	regulation of apoptosis	0.0429185461111705
GO:0043067	regulation of programmed cell death	0.0433592482113674
GO:0042221	response to chemical stimulus	0.0447982881686363
GO:0009952	anterior/posterior pattern formation	0.0484169636769364
GO:0007411	axon guidance	0.0488329231328653

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>

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Cell Type

Ontology term	p-value	n
neural cell	1.96e-08	25
neurectodermal cell	1.58e-07	59

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	2.49e-27	94
nervous system	2.49e-27	94
central nervous system	7.18e-26	82
ectoderm	4.63e-21	173
presumptive ectoderm	4.63e-21	173
neurectoderm	1.28e-20	90
neural tube	1.60e-20	57
neural rod	1.60e-20	57
future spinal cord	1.60e-20	57
neural keel	1.60e-20	57
brain	4.38e-20	69
future brain	4.38e-20	69
ectoderm-derived structure	7.47e-20	169
neural plate	2.41e-19	86
presumptive neural plate	2.41e-19	86
regional part of forebrain	3.16e-18	41
forebrain	3.16e-18	41
future forebrain	3.16e-18	41
cerebral hemisphere	4.48e-18	32
regional part of brain	4.81e-18	59
gray matter	5.76e-18	34
brain grey matter	5.76e-18	34
telencephalon	9.11e-18	34
anterior neural tube	3.19e-17	42
regional part of telencephalon	3.97e-17	33
cerebral cortex	5.16e-15	25
pallium	5.16e-15	25
pre-chordal neural plate	8.94e-15	61
regional part of cerebral cortex	1.70e-14	22
head	2.56e-14	123
adult organism	2.70e-14	115
anterior region of body	4.83e-14	129
craniocervical region	4.83e-14	129
neocortex	1.97e-13	20
multi-tissue structure	6.14e-08	347
organ part	1.62e-07	219

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

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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

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No analysis results for this cluster

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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