Coexpression cluster:C391

Full id: C391_large_bronchioalveolar_fibrosarcoma_lung_pancreatic_giant_testis

Phase1 CAGE Peaks

Hg19::chr10:4822880..4822903,-	p@chr10:4822880..4822903 -
Hg19::chr10:4822908..4822927,-	p@chr10:4822908..4822927 -
Hg19::chr10:4822941..4822949,-	p@chr10:4822941..4822949 -
Hg19::chr11:75719740..75719766,+	p@chr11:75719740..75719766 +
Hg19::chr12:122430653..122430662,+	p@chr12:122430653..122430662 +
Hg19::chr12:21815245..21815251,+	p1@ENST00000541860
Hg19::chr12:75174802..75174809,+	p@chr12:75174802..75174809 +
Hg19::chr13:109644678..109644725,+	p@chr13:109644678..109644725 +
Hg19::chr17:47286603..47286624,-	p4@GNGT2
Hg19::chr1:33886864..33886872,-	p@chr1:33886864..33886872 -
Hg19::chr1:33886874..33886882,-	p@chr1:33886874..33886882 -
Hg19::chr1:8251750..8251759,+	p@chr1:8251750..8251759 +
Hg19::chr2:33589897..33589917,+	p@chr2:33589897..33589917 +
Hg19::chr2:45797888..45797917,-	p@chr2:45797888..45797917 -
Hg19::chr2:45797921..45797939,-	p@chr2:45797921..45797939 -
Hg19::chr2:75145327..75145329,+	p9@ENST00000435984
Hg19::chr3:25894063..25894094,+	p@chr3:25894063..25894094 +
Hg19::chr3:26426173..26426176,+	p@chr3:26426173..26426176 +
Hg19::chr4:189864076..189864089,+	p@chr4:189864076..189864089 +
Hg19::chr5:142638718..142638753,+	p@chr5:142638718..142638753 +
Hg19::chr5:92526866..92526914,-	p@chr5:92526866..92526914 -
Hg19::chr6:56765635..56765674,-	p@chr6:56765635..56765674 -
Hg19::chr6:56765738..56765745,-	p@chr6:56765738..56765745 -
Hg19::chr6:707779..707821,+	p@chr6:707779..707821 +
Hg19::chr7:100810718..100810739,-	p@chr7:100810718..100810739 -
Hg19::chrX:105065622..105065627,+	p@chrX:105065622..105065627 +
Hg19::chrX:45474991..45474996,+	p@chrX:45474991..45474996 +

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:0007602	phototransduction	0.0060343812551513
GO:0050908	detection of light stimulus during visual perception	0.0060343812551513
GO:0050962	detection of light stimulus during sensory perception	0.0060343812551513
GO:0009584	detection of visible light	0.0060343812551513
GO:0009583	detection of light stimulus	0.0060343812551513
GO:0005834	heterotrimeric G-protein complex	0.0060343812551513
GO:0009582	detection of abiotic stimulus	0.0060343812551513
GO:0050906	detection of stimulus during sensory perception	0.0060343812551513
GO:0019897	extrinsic to plasma membrane	0.0060343812551513
GO:0009581	detection of external stimulus	0.0060343812551513
GO:0051606	detection of stimulus	0.00814641469445426
GO:0009416	response to light stimulus	0.00814641469445426
GO:0009314	response to radiation	0.00922398277573127
GO:0019898	extrinsic to membrane	0.00922398277573127
GO:0009628	response to abiotic stimulus	0.0132756387613329
GO:0007601	visual perception	0.0158313767046911
GO:0050953	sensory perception of light stimulus	0.0158313767046911
GO:0003924	GTPase activity	0.0183713384879051
GO:0009605	response to external stimulus	0.0402080351001134

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><br><br>

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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)
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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
FOS#2353	8	2.66606083226501	0.00736170601140233	0.0304350096637181

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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This analysis result is provided for C0 - C305 clusters.