MCL coexpression mm9:834

Phase1 CAGE Peaks

	Short description
Mm9::chr16:8792424..8792441,-	p5@Usp7
Mm9::chr16:8792459..8792470,-	p11@Usp7
Mm9::chr2:168592591..168592604,-	p2@Sall4
Mm9::chr3:41359618..41359629,+	p14@Phf17
Mm9::chr7:134891622..134891634,+	p6@Fbxl19
Mm9::chr7:134891651..134891669,+	p2@Fbxl19
Mm9::chr8:26958093..26958148,-	p2@Ash2l
Mm9::chr8:34627132..34627150,+	p4@Tex15
Mm9::chr9:114421557..114421561,-	p@chr9:114421557..114421561 -

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:0008270	zinc ion binding	0.0321341290354308
GO:0043283	biopolymer metabolic process	0.0321341290354308
GO:0046914	transition metal ion binding	0.0430705596479491

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>cell_data<br>uberon_data<br><br>

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Cell Type

Ontology term	p-value	n
extraembryonic cell	4.70e-14	3
trophoblast cell	4.70e-14	3

Uber Anatomy

Ontology term	p-value	n
gonad	1.52e-41	18
gonad primordium	1.52e-41	18
reproductive organ	1.04e-40	24
external genitalia	4.48e-38	17
indifferent external genitalia	4.48e-38	17
indifferent gonad	4.48e-38	17
reproductive structure	2.24e-37	26
reproductive system	2.24e-37	26
testis	9.05e-34	14
male reproductive organ	2.11e-31	15
male organism	2.48e-29	16
male reproductive system	2.48e-29	16
body cavity	5.27e-19	37
body cavity or lining	5.27e-19	37
body cavity precursor	1.93e-18	38
anatomical cavity	6.61e-18	39
blastocyst	4.70e-14	3
blastula	4.70e-14	3
cleaving embryo	4.70e-14	3
extraembryonic membrane	4.25e-13	3
extraembryonic structure	4.25e-13	3
membranous layer	4.25e-13	3
anatomical space	1.75e-11	57
placenta	1.38e-09	2
chorion	1.38e-09	2
allantois	1.38e-09	2
female reproductive organ	3.03e-08	8
mesoderm	6.94e-08	120
mesoderm-derived structure	6.94e-08	120
presumptive mesoderm	6.94e-08	120
immaterial anatomical entity	1.34e-07	79
female reproductive system	2.43e-07	9

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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