Coexpression cluster:C902

Full id: C902_anaplastic_skeletal_tongue_liver_umbilical_pituitary_diaphragm

Phase1 CAGE Peaks

Hg19::chr14:101193191..101193241,+	p1@DLK1
Hg19::chr14:101193246..101193264,+	p2@DLK1
Hg19::chr14:101193271..101193288,+	p3@DLK1
Hg19::chr14:101193325..101193336,+	p4@DLK1
Hg19::chr14:101194733..101194743,+	p@chr14:101194733..101194743 +
Hg19::chr14:101200589..101200608,+	p@chr14:101200589..101200608 +
Hg19::chr14:101200645..101200656,+	p@chr14:101200645..101200656 +
Hg19::chr14:101201250..101201259,+	p@chr14:101201250..101201259 +
Hg19::chr20:57429075..57429096,+	p41@GNAS

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:0031852	mu-type opioid receptor binding	0.00170728835511598
GO:0031628	opioid receptor binding	0.00170728835511598
GO:0000267	cell fraction	0.013614717070241
GO:0042383	sarcolemma	0.013655291407137
GO:0007189	G-protein signaling, adenylate cyclase activating pathway	0.0210453992747378
GO:0005834	heterotrimeric G-protein complex	0.0210453992747378
GO:0019897	extrinsic to plasma membrane	0.024308806425694
GO:0009306	protein secretion	0.024308806425694
GO:0007565	female pregnancy	0.0269720135633154
GO:0007188	G-protein signaling, coupled to cAMP nucleotide second messenger	0.0269720135633154
GO:0019933	cAMP-mediated signaling	0.0269720135633154
GO:0001664	G-protein-coupled receptor binding	0.0277224307614203
GO:0019898	extrinsic to membrane	0.0277224307614203
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.0277224307614203
GO:0019935	cyclic-nucleotide-mediated signaling	0.0277224307614203
GO:0005625	soluble fraction	0.0497669265942867

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
embryonic stem cell	8.61e-16	5

Uber Anatomy

Ontology term	p-value	n
pituitary gland	7.14e-08	2
endocrine gland	3.69e-07	35
male reproductive organ	9.76e-07	11

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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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
REST#5978	4	4.28890165161245	0.00945702594596283	0.0356667027578511

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.