MCL coexpression mm9:2273

Phase1 CAGE Peaks

	Short description
Mm9::chr19:6226378..6226381,+	p1@Gpha2
Mm9::chr3:107895769..107895776,+	p4@Gnat2
Mm9::chr3:51200425..51200448,-	p1@4930583H14Rik
Mm9::chr3:51200450..51200473,-	p2@4930583H14Rik

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:0007199	G-protein signaling, coupled to cGMP nucleotide second messenger	0.0101895474352689
GO:0019934	cGMP-mediated signaling	0.0101895474352689
GO:0007602	phototransduction	0.0252153620367064
GO:0050908	detection of light stimulus during visual perception	0.0252153620367064
GO:0009584	detection of visible light	0.0252153620367064
GO:0050962	detection of light stimulus during sensory perception	0.0252153620367064
GO:0009583	detection of light stimulus	0.0252153620367064
GO:0005834	heterotrimeric G-protein complex	0.0279982255400416
GO:0009582	detection of abiotic stimulus	0.0291141374233647
GO:0009581	detection of external stimulus	0.0291141374233647
GO:0019897	extrinsic to plasma membrane	0.0291141374233647
GO:0050906	detection of stimulus during sensory perception	0.0291141374233647
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.0291141374233647
GO:0019935	cyclic-nucleotide-mediated signaling	0.0291141374233647
GO:0051606	detection of stimulus	0.0291141374233647
GO:0019898	extrinsic to membrane	0.0291141374233647
GO:0009416	response to light stimulus	0.0291141374233647
GO:0009314	response to radiation	0.0350107934347687
GO:0007601	visual perception	0.0375897770157513
GO:0050953	sensory perception of light stimulus	0.0375897770157513
GO:0005179	hormone activity	0.0378543659037066
GO:0019932	second-messenger-mediated signaling	0.0378543659037066
GO:0003924	GTPase activity	0.0394347579834292
GO:0009628	response to abiotic stimulus	0.0473362755664084

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
reproductive structure	4.15e-09	26
reproductive system	4.15e-09	26
reproductive organ	5.79e-09	24
gonad	1.10e-08	18
gonad primordium	1.10e-08	18
external genitalia	2.87e-08	17
indifferent external genitalia	2.87e-08	17
indifferent gonad	2.87e-08	17
male reproductive organ	1.60e-07	15
testis	2.07e-07	14
eye	3.23e-07	9
camera-type eye	3.23e-07	9
simple eye	3.23e-07	9
immature eye	3.23e-07	9
ocular region	3.23e-07	9
visual system	3.23e-07	9
face	3.23e-07	9
optic cup	3.23e-07	9
optic vesicle	3.23e-07	9
eye primordium	3.23e-07	9
male organism	4.03e-07	16
male reproductive system	4.03e-07	16

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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