Coexpression cluster:C3343

Full id: C3343_heart_aorta_cervix_prostate_penis_rectum_smooth

Phase1 CAGE Peaks

Hg19::chr12:91576750..91576805,-	p7@DCN
Hg19::chr16:49698178..49698209,-	p1@ZNF423
Hg19::chr19:41107249..41107295,+	p1@LTBP4

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:0005578	proteinaceous extracellular matrix	0.0337609163535741
GO:0030162	regulation of proteolysis	0.0337609163535741
GO:0004675	transmembrane receptor protein serine/threonine kinase activity	0.0337609163535741
GO:0005024	transforming growth factor beta receptor activity	0.0337609163535741
GO:0044421	extracellular region part	0.0359035381252379

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	6.44e-28	115
anatomical cluster	1.91e-11	286
multi-tissue structure	2.22e-11	347
organism subdivision	2.40e-09	365
anterior region of body	3.87e-09	129
craniocervical region	3.87e-09	129
multi-cellular organism	9.64e-09	659
endoderm-derived structure	1.05e-08	169
endoderm	1.05e-08	169
presumptive endoderm	1.05e-08	169
anatomical conduit	1.39e-08	241
epithelium	1.79e-08	309
ectoderm	1.93e-08	173
presumptive ectoderm	1.93e-08	173
head	2.36e-08	123
cell layer	2.82e-08	312
ectoderm-derived structure	4.81e-08	169
digestive system	1.16e-07	155
digestive tract	1.16e-07	155
primitive gut	1.16e-07	155
organ	1.93e-07	511
surface structure	2.07e-07	95
orifice	4.30e-07	35
neurectoderm	5.38e-07	90
anatomical system	5.77e-07	625
anatomical group	9.34e-07	626

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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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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This analysis result is provided for C0 - C305 clusters.