Coexpression cluster:C1566

Full id: C1566_Mammary_nasal_Prostate_salivary_Mallassezderived_Keratinocyte_Small

Phase1 CAGE Peaks

Hg19::chr10:118187351..118187372,+	p2@PNLIPRP3
Hg19::chr10:118187381..118187397,+	p3@PNLIPRP3
Hg19::chr10:118187398..118187461,+	p1@PNLIPRP3
Hg19::chr10:118187463..118187478,+	p4@PNLIPRP3
Hg19::chr2:26492664..26492712,+	p8@HADHB

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:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.000691704118441
GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	0.000691704118441
GO:0004420	hydroxymethylglutaryl-CoA reductase (NADPH) activity	0.0034731931038083
GO:0003988	acetyl-CoA C-acyltransferase activity	0.0034731931038083
GO:0004300	enoyl-CoA hydratase activity	0.0034731931038083
GO:0003857	3-hydroxyacyl-CoA dehydrogenase activity	0.0034731931038083
GO:0015936	coenzyme A metabolic process	0.00507812047928637
GO:0016408	C-acyltransferase activity	0.00507812047928637
GO:0006629	lipid metabolic process	0.00507812047928637
GO:0004806	triacylglycerol lipase activity	0.00590347226265187
GO:0006635	fatty acid beta-oxidation	0.00631359522097267
GO:0019395	fatty acid oxidation	0.00839070837333246
GO:0016491	oxidoreductase activity	0.0095152279885012
GO:0016836	hydro-lyase activity	0.0223000631367963
GO:0016835	carbon-oxygen lyase activity	0.0233534647505825
GO:0006752	group transfer coenzyme metabolic process	0.028113401335386
GO:0016298	lipase activity	0.028113401335386
GO:0016042	lipid catabolic process	0.028113401335386
GO:0004091	carboxylesterase activity	0.0330786712846615
GO:0006631	fatty acid metabolic process	0.0330786712846615
GO:0008415	acyltransferase activity	0.0379139517561873
GO:0016747	transferase activity, transferring groups other than amino-acyl groups	0.0379139517561873
GO:0016829	lyase activity	0.0379139517561873
GO:0032787	monocarboxylic acid metabolic process	0.0379139517561873
GO:0006732	coenzyme metabolic process	0.0379139517561873
GO:0050662	coenzyme binding	0.0379139517561873
GO:0016746	transferase activity, transferring acyl groups	0.0379139517561873
GO:0005743	mitochondrial inner membrane	0.038649889670947
GO:0019866	organelle inner membrane	0.039452664886069
GO:0051186	cofactor metabolic process	0.0395131930363828
GO:0031966	mitochondrial membrane	0.0451821520565083
GO:0048037	cofactor binding	0.0451821520565083
GO:0005740	mitochondrial envelope	0.0451821520565083

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
endo-epithelial cell	1.51e-18	43
respiratory epithelial cell	1.95e-14	13
general ecto-epithelial cell	1.09e-12	13
endodermal cell	2.12e-12	59
acinar cell	7.60e-10	5
CD14-positive, CD16-negative classical monocyte	8.96e-09	42
epithelial cell of tracheobronchial tree	1.38e-08	9
epithelial cell of lower respiratory tract	1.38e-08	9
protein secreting cell	4.52e-08	6
classical monocyte	7.41e-08	45

Uber Anatomy

Ontology term	p-value	n
respiratory system	9.23e-13	72
orifice	1.62e-10	35
oral opening	1.65e-10	21
mouth	2.12e-08	28
stomodeum	2.12e-08	28
endoderm-derived structure	1.51e-07	169
endoderm	1.51e-07	169
presumptive endoderm	1.51e-07	169
surface structure	2.16e-07	95
respiratory tract	8.77e-07	53

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.