MCL coexpression mm9:725

Phase1 CAGE Peaks

	Short description
Mm9::chr13:120217297..120217311,+	p7@Paip1
Mm9::chr16:8783471..8783495,-	p@chr16:8783471..8783495 -
Mm9::chr17:23940582..23940651,+	p@chr17:23940582..23940651 +
Mm9::chr2:10514804..10514818,+	p@chr2:10514804..10514818 +
Mm9::chr2:121854280..121854299,+	p2@Eif3j
Mm9::chr2:154718567..154718619,-	p1@Eif2s2 p1@Gm9892
Mm9::chr2:154718623..154718630,-	p2@Eif2s2
Mm9::chr4:132595425..132595440,+	p8@Ahdc1
Mm9::chr8:28334286..28334305,-	p@chr8:28334286..28334305 -
Mm9::chr8:44391224..44391234,-	p@chr8:44391224..44391234 -

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:0006412	translation	0.00218338187021981
GO:0003743	translation initiation factor activity	0.0023664660051835
GO:0009059	macromolecule biosynthetic process	0.00245155188948107
GO:0008135	translation factor activity, nucleic acid binding	0.00262078524398316
GO:0044249	cellular biosynthetic process	0.0033130541374977
GO:0009058	biosynthetic process	0.00676030477367006
GO:0006413	translational initiation	0.0466916131618276
GO:0044267	cellular protein metabolic process	0.0466916131618276
GO:0044260	cellular macromolecule metabolic process	0.0466916131618276
GO:0010467	gene expression	0.0466916131618276
GO:0019538	protein metabolic process	0.0466916131618276

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
gonad	2.06e-12	18
gonad primordium	2.06e-12	18
reproductive organ	6.75e-12	24
external genitalia	1.81e-11	17
indifferent external genitalia	1.81e-11	17
indifferent gonad	1.81e-11	17
reproductive structure	1.82e-10	26
reproductive system	1.82e-10	26
testis	3.85e-10	14
male reproductive organ	3.52e-09	15
male organism	2.40e-08	16
male reproductive system	2.40e-08	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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