MCL coexpression mm9:1804

Phase1 CAGE Peaks

	Short description
Mm9::chr4:57580688..57580708,+	p3@Palm2
Mm9::chr4:57580717..57580741,+	p4@Palm2
Mm9::chr4:57580993..57581008,+	p5@Palm2
Mm9::chr4:57581016..57581032,+	p6@Palm2
Mm9::chrX:54579450..54579489,-	p5@Arhgef6

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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GO ID	GO name	FDR corrected p-value
GO:0008360	regulation of cell shape	0.0344235690782167
GO:0022603	regulation of anatomical structure morphogenesis	0.0344235690782167
GO:0022604	regulation of cell morphogenesis	0.0344235690782167
GO:0005089	Rho guanyl-nucleotide exchange factor activity	0.0344235690782167
GO:0035023	regulation of Rho protein signal transduction	0.0344235690782167
GO:0005088	Ras guanyl-nucleotide exchange factor activity	0.0344235690782167
GO:0007266	Rho protein signal transduction	0.0399849697541542
GO:0046578	regulation of Ras protein signal transduction	0.0436795315613971
GO:0005085	guanyl-nucleotide exchange factor activity	0.0436795315613971
GO:0051056	regulation of small GTPase mediated signal transduction	0.0436795315613971
GO:0007265	Ras protein signal transduction	0.0439393035088579
GO:0005083	small GTPase regulator activity	0.0439393035088579

Relative expression of the co-expression cluster over median <br>Analyst:

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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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
primary circulatory organ	2.26e-11	18
heart	2.26e-11	18
primitive heart tube	2.26e-11	18
primary heart field	2.26e-11	18
anterior lateral plate mesoderm	2.26e-11	18
heart tube	2.26e-11	18
heart primordium	2.26e-11	18
cardiac mesoderm	2.26e-11	18
cardiogenic plate	2.26e-11	18
heart rudiment	2.26e-11	18
cardiovascular system	3.64e-10	23
circulatory system	3.64e-10	23
lung	3.53e-08	14
respiratory tube	3.53e-08	14
respiration organ	3.53e-08	14
pair of lungs	3.53e-08	14
lung primordium	3.53e-08	14
lung bud	3.53e-08	14
epithelial bud	9.80e-08	17
epithelial fold	3.42e-07	20
splanchnic layer of lateral plate mesoderm	3.78e-07	33
multi-cellular organism	8.11e-07	333

TFBS overrepresentation<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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