Coexpression cluster:C230

Full id: C230_aorta_normal_heart_penis_osteosarcoma_basal_lung

Phase1 CAGE Peaks

Hg19::chr10:15646574..15646578,-	p11@ITGA8
Hg19::chr10:15760797..15760808,-	p@chr10:15760797..15760808 -
Hg19::chr10:15760828..15760842,-	p@chr10:15760828..15760842 -
Hg19::chr10:15761845..15761856,-	p4@ITGA8
Hg19::chr10:15761884..15761936,-	p1@ITGA8
Hg19::chr10:15761954..15761965,-	p7@ITGA8
Hg19::chr10:15761966..15761979,-	p2@ITGA8
Hg19::chr10:15762207..15762225,-	p8@ITGA8
Hg19::chr10:15762227..15762257,-	p3@ITGA8
Hg19::chr10:15762274..15762283,-	p12@ITGA8
Hg19::chr10:15762312..15762340,-	p6@ITGA8
Hg19::chr10:15762346..15762358,-	p9@ITGA8
Hg19::chr12:19928351..19928358,+	p2@ENST00000535764
Hg19::chr12:19928380..19928401,+	p1@ENST00000535764
Hg19::chr13:39952800..39952810,-	p@chr13:39952800..39952810 -
Hg19::chr14:92307575..92307589,-	p@chr14:92307575..92307589 -
Hg19::chr14:92307596..92307610,-	p@chr14:92307596..92307610 -
Hg19::chr14:92307628..92307643,-	p@chr14:92307628..92307643 -
Hg19::chr16:2173505..2173521,-	p1@AF088750
Hg19::chr16:73127519..73127528,-	p@chr16:73127519..73127528 -
Hg19::chr16:73127560..73127571,-	p@chr16:73127560..73127571 -
Hg19::chr17:12570155..12570163,+	p@chr17:12570155..12570163 +
Hg19::chr1:16084107..16084112,+	p19@FBLIM1
Hg19::chr1:163117077..163117096,-	p@chr1:163117077..163117096 -
Hg19::chr1:48224242..48224244,+	p@chr1:48224242..48224244 +
Hg19::chr22:25466244..25466263,+	p8@KIAA1671
Hg19::chr22:25466273..25466284,+	p7@KIAA1671
Hg19::chr22:25466305..25466317,+	p6@KIAA1671
Hg19::chr2:107467431..107467465,-	p@chr2:107467431..107467465 -
Hg19::chr2:18116344..18116353,+	p@chr2:18116344..18116353 +
Hg19::chr2:285923..285935,+	p1@ENST00000450709
Hg19::chr2:28958958..28958989,-	p1@ENST00000444501
Hg19::chr2:28959059..28959099,-	p1@ENST00000452212
Hg19::chr2:33285212..33285215,+	p@chr2:33285212..33285215 +
Hg19::chr2:33285233..33285259,+	p@chr2:33285233..33285259 +
Hg19::chr2:33285264..33285274,+	p@chr2:33285264..33285274 +
Hg19::chr3:24231794..24231799,-	p38@THRB
Hg19::chr3:29966392..29966406,+	p22@RBMS3
Hg19::chr3:33260352..33260365,-	p3@SUSD5
Hg19::chr3:33260373..33260422,-	p2@SUSD5
Hg19::chr3:33260478..33260490,-	p8@SUSD5
Hg19::chr3:33260765..33260770,-	p7@SUSD5
Hg19::chr3:57881966..57881977,+	p13@SLMAP
Hg19::chr3:57882024..57882045,+	p10@SLMAP
Hg19::chr3:57882061..57882085,+	p4@SLMAP
Hg19::chr4:106833328..106833353,+	p7@NPNT
Hg19::chr4:119860470..119860487,+	p@chr4:119860470..119860487 +
Hg19::chr4:15429533..15429568,-	p1@ENST00000502344
Hg19::chr4:174846835..174846846,+	p@chr4:174846835..174846846 +
Hg19::chr5:122448503..122448506,+	p@chr5:122448503..122448506 +
Hg19::chr5:59792105..59792117,-	p@chr5:59792105..59792117 -
Hg19::chr6:84743412..84743431,+	p2@MRAP2
Hg19::chr6:84743436..84743496,+	p1@MRAP2
Hg19::chr7:40549076..40549087,+	p@chr7:40549076..40549087 +
Hg19::chr7:40549088..40549102,+	p@chr7:40549088..40549102 +
Hg19::chr7:73462921..73462932,+	p@chr7:73462921..73462932 +
Hg19::chr7:73468280..73468302,-	p@chr7:73468280..73468302 -
Hg19::chr8:120428678..120428695,+	p1@NOV
Hg19::chr8:120430391..120430409,+	p@chr8:120430391..120430409 +
Hg19::chr8:120435183..120435195,-	p1@CU677182
Hg19::chr8:97398865..97398877,-	p1@ENST00000523862

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:0022610	biological adhesion	0.00609452779185376
GO:0007155	cell adhesion	0.00609452779185376
GO:0000902	cell morphogenesis	0.00933294408204043
GO:0032989	cellular structure morphogenesis	0.00933294408204043
GO:0030511	positive regulation of transforming growth factor beta receptor signaling pathway	0.0436562672371586
GO:0032501	multicellular organismal process	0.0436562672371586
GO:0005515	protein binding	0.0455961126751561
GO:0009653	anatomical structure morphogenesis	0.0455961126751561
GO:0004887	thyroid hormone receptor activity	0.0493564118487119
GO:0007613	memory	0.0493564118487119
GO:0005790	smooth endoplasmic reticulum	0.0493564118487119

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
adult organism	3.12e-37	114
meninx	2.02e-12	2
membrane organ	2.02e-12	2
meningeal cluster	2.02e-12	2
valve	9.70e-09	3
cardiac mesenchyme	9.70e-09	3
cardial valve	9.70e-09	3
tunica intima	9.70e-09	3
heart layer	9.70e-09	3
endocardium	9.70e-09	3
endocardial cushion	9.70e-09	3
presumptive endocardium	9.70e-09	3
pulmonary valve	3.13e-07	1
semi-lunar valve	3.13e-07	1
penis	3.32e-07	1
intromittent organ	3.32e-07	1
lateral plate mesenchyme	3.32e-07	1
undifferentiated genital tubercle	3.32e-07	1
somatopleure	3.32e-07	1
mitral valve	3.95e-07	1
dura mater	4.18e-07	1
future meninx	4.18e-07	1
ectomeninx	4.18e-07	1
future dura mater	4.18e-07	1
uterus or analog	4.69e-07	1
epididymis	6.99e-07	1

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
RAD21#5885	12	2.03705584828649	0.0128043598161993	0.0460700222153181

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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