Coexpression cluster:C477

Full id: C477_Mesenchymal_Amniotic_Placental_chorionic_umbilical_Cardiac_acute

Phase1 CAGE Peaks

Hg19::chr11:1480395..1480413,+	p@chr11:1480395..1480413 +
Hg19::chr11:1897722..1897737,+	p18@LSP1
Hg19::chr12:123465379..123465397,+	p7@ARL6IP4
Hg19::chr14:52781196..52781213,+	p3@PTGER2
Hg19::chr16:49698228..49698243,-	p2@ZNF423
Hg19::chr16:89686991..89687015,+	p5@DPEP1
Hg19::chr16:89687026..89687041,+	p7@DPEP1
Hg19::chr17:37824505..37824516,+	p11@PNMT
Hg19::chr17:37824531..37824553,+	p6@PNMT
Hg19::chr17:37824598..37824605,+	p15@PNMT
Hg19::chr17:37824700..37824714,+	p2@PNMT
Hg19::chr17:37825180..37825196,+	p@chr17:37825180..37825196 +
Hg19::chr17:7836505..7836526,+	p3@CNTROB
Hg19::chr18:71928422..71928428,-	p3@CYB5A
Hg19::chr1:1567682..1567692,+	p1@MMP23A
Hg19::chr3:154801312..154801336,+	p29@MME
Hg19::chr3:162256416..162256425,-	p@chr3:162256416..162256425 -
Hg19::chr4:1166954..1166973,-	p13@SPON2
Hg19::chr7:101556503..101556516,+	p12@CUX1
Hg19::chr7:95979117..95979120,+	p@chr7:95979117..95979120 +

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:0004603	phenylethanolamine N-methyltransferase activity	0.0459019238428391
GO:0007099	centriole replication	0.0459019238428391
GO:0051299	centrosome separation	0.0459019238428391
GO:0005792	microsome	0.0459019238428391
GO:0042598	vesicular fraction	0.0459019238428391
GO:0004237	membrane dipeptidase activity	0.0459019238428391
GO:0016564	transcription repressor activity	0.0466288745382801
GO:0005814	centriole	0.0466288745382801
GO:0051298	centrosome duplication	0.0466288745382801
GO:0004960	thromboxane receptor activity	0.0466288745382801
GO:0042423	catecholamine biosynthetic process	0.0466288745382801
GO:0016481	negative regulation of transcription	0.0466288745382801
GO:0016805	dipeptidase activity	0.0466288745382801
GO:0042491	auditory receptor cell differentiation	0.0466288745382801
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0466288745382801
GO:0007098	centrosome cycle	0.0466288745382801
GO:0004245	neprilysin activity	0.0466288745382801
GO:0042490	mechanoreceptor differentiation	0.0466288745382801
GO:0060113	inner ear receptor cell differentiation	0.0466288745382801
GO:0004957	prostaglandin E receptor activity	0.0466288745382801
GO:0008237	metallopeptidase activity	0.0466288745382801
GO:0051297	centrosome organization and biogenesis	0.0466288745382801
GO:0031023	microtubule organizing center organization and biogenesis	0.0466288745382801
GO:0031324	negative regulation of cellular metabolic process	0.0466288745382801
GO:0006928	cell motility	0.0466288745382801
GO:0051674	localization of cell	0.0466288745382801
GO:0008239	dipeptidyl-peptidase activity	0.0466288745382801
GO:0016806	dipeptidyl-peptidase and tripeptidyl-peptidase activity	0.0466288745382801

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
mesenchymal stem cell of umbilical cord	1.61e-09	6
central nervous system pericyte	1.05e-07	2
smooth muscle cell of the umbilical vein	1.20e-07	2
hepatic stem cell	1.75e-07	2
hepatic mesenchymal stem cell	1.75e-07	2

Uber Anatomy

Ontology term	p-value	n
mesenchyme of umbilical cord	1.61e-09	6

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.