Coexpression cluster:C2248

Full id: C2248_anaplastic_cord_Mast_leukemia_mycosis_chronic_Fibroblast

Phase1 CAGE Peaks

Hg19::chr12:93965704..93965728,+	p6@SOCS2
Hg19::chr12:93966292..93966306,+	p15@SOCS2
Hg19::chr12:93968004..93968009,+	p@chr12:93968004..93968009 +
Hg19::chr6:88876353..88876383,-	p4@CNR1

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:0005148	prolactin receptor binding	0.00329678416151928
GO:0004949	cannabinoid receptor activity	0.00329678416151928
GO:0008269	JAK pathway signal transduction adaptor activity	0.00329678416151928
GO:0008268	receptor signaling protein tyrosine kinase signaling protein activity	0.00370882759195954
GO:0005131	growth hormone receptor binding	0.00395602453569053
GO:0005159	insulin-like growth factor receptor binding	0.00906495546968549
GO:0007259	JAK-STAT cascade	0.0269506616453008
GO:0005070	SH3/SH2 adaptor activity	0.0269506616453008
GO:0007242	intracellular signaling cascade	0.0269506616453008
GO:0005126	hematopoietin/interferon-class (D200-domain) cytokine receptor binding	0.0269506616453008
GO:0060090	molecular adaptor activity	0.0269506616453008
GO:0030674	protein binding, bridging	0.0374517951281148
GO:0009968	negative regulation of signal transduction	0.0395020162906004
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.0401497273096432
GO:0019935	cyclic-nucleotide-mediated signaling	0.0401497273096432
GO:0001558	regulation of cell growth	0.0441585883937592
GO:0006916	anti-apoptosis	0.0441585883937592
GO:0005057	receptor signaling protein activity	0.0441585883937592
GO:0016049	cell growth	0.0441585883937592
GO:0040008	regulation of growth	0.0441585883937592
GO:0060089	molecular transducer activity	0.0441585883937592
GO:0004871	signal transducer activity	0.0441585883937592
GO:0008361	regulation of cell size	0.0441585883937592
GO:0043066	negative regulation of apoptosis	0.0453429448171146
GO:0043069	negative regulation of programmed cell death	0.0453429448171146

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
skin fibroblast	1.54e-08	23

Uber Anatomy

Ontology term	p-value	n
adult organism	2.91e-17	114
central nervous system	1.86e-10	81
nervous system	1.29e-09	89
regional part of nervous system	7.52e-09	53
regional part of brain	7.52e-09	53
neural tube	1.52e-08	56
neural rod	1.52e-08	56
future spinal cord	1.52e-08	56
neural keel	1.52e-08	56
brain	1.04e-07	68
future brain	1.04e-07	68
organ system subdivision	8.14e-07	223

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.