Coexpression cluster:C819

Full id: C819_Alveolar_MCF7_mesothelioma_endometrioid_signet_Renal_gastric

Phase1 CAGE Peaks

Hg19::chr12:53298570..53298600,-	p5@KRT8
Hg19::chr12:53298672..53298713,-	p7@KRT8
Hg19::chr12:53342893..53342911,+	p1@KRT18
Hg19::chr12:53343121..53343150,+	p6@KRT18
Hg19::chr12:53344588..53344613,+	p4@KRT18
Hg19::chr12:53344624..53344654,-	p@chr12:53344624..53344654 -
Hg19::chr12:53345928..53345949,+	p3@KRT18
Hg19::chr2:203706578..203706583,-	p1@KRT8P15
Hg19::chr2:236715167..236715174,+	p@chr2:236715167..236715174 +
Hg19::chr3:170213152..170213154,+	p1@KRT8P13

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:0005882	intermediate filament	0.00163391453254799
GO:0045111	intermediate filament cytoskeleton	0.00163391453254799
GO:0043000	Golgi to plasma membrane CFTR protein transport	0.00266882527361085
GO:0043001	Golgi to plasma membrane protein transport	0.0030023842411101
GO:0006893	Golgi to plasma membrane transport	0.00560412061869646
GO:0044430	cytoskeletal part	0.00756000214426228
GO:0030018	Z disc	0.00756000214426228
GO:0042383	sarcolemma	0.00756000214426228
GO:0031674	I band	0.00756000214426228
GO:0006892	post-Golgi vesicle-mediated transport	0.00840444861332212
GO:0005856	cytoskeleton	0.0107478076253176
GO:0030017	sarcomere	0.0160021099440816
GO:0030016	myofibril	0.0163086417198209
GO:0044449	contractile fiber part	0.0170648948467576
GO:0043292	contractile fiber	0.0170648948467576
GO:0005200	structural constituent of cytoskeleton	0.0197684410496945
GO:0045095	keratin filament	0.0197684410496945
GO:0048193	Golgi vesicle transport	0.0197684410496945
GO:0043232	intracellular non-membrane-bound organelle	0.0251111392713346
GO:0043228	non-membrane-bound organelle	0.0251111392713346
GO:0016043	cellular component organization and biogenesis	0.0301217712229689
GO:0051707	response to other organism	0.0372143670088532
GO:0043066	negative regulation of apoptosis	0.0372143670088532
GO:0043069	negative regulation of programmed cell death	0.0372143670088532
GO:0045045	secretory pathway	0.0372143670088532
GO:0044446	intracellular organelle part	0.0372143670088532
GO:0044422	organelle part	0.0372143670088532
GO:0009607	response to biotic stimulus	0.0408206615432263
GO:0032940	secretion by cell	0.0408206615432263
GO:0051704	multi-organism process	0.0442194544953417
GO:0046903	secretion	0.0493096828301634

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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This analysis result is provided for C0 - C305 clusters.