MCL coexpression mm9:906

Phase1 CAGE Peaks

	Short description
Mm9::chr11:53670461..53670487,+	p@chr11:53670461..53670487 +
Mm9::chr16:10489821..10489850,+	p4@Ciita
Mm9::chr16:10489852..10489897,+	p2@Ciita
Mm9::chr16:55816886..55816906,+	p@chr16:55816886..55816906 +
Mm9::chr17:34290110..34290184,+	p1@H2-DMb1
Mm9::chr17:84555738..84555750,-	p@chr17:84555738..84555750 -
Mm9::chr5:73948518..73948529,+	p@chr5:73948518..73948529 +
Mm9::chr5:73948543..73948565,+	p@chr5:73948543..73948565 +

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:0042613	MHC class II protein complex	0.0195077156806841
GO:0051085	chaperone cofactor-dependent protein folding	0.0195077156806841
GO:0006458	'de novo' protein folding	0.0195077156806841
GO:0051084	'de novo' posttranslational protein folding	0.0195077156806841
GO:0002495	antigen processing and presentation of peptide antigen via MHC class II	0.0195077156806841
GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II	0.0195077156806841
GO:0002478	antigen processing and presentation of exogenous peptide antigen	0.0195077156806841
GO:0002504	antigen processing and presentation of peptide or polysaccharide antigen via MHC class II	0.0195077156806841
GO:0019884	antigen processing and presentation of exogenous antigen	0.0209884571534992
GO:0042611	MHC protein complex	0.0221723299436552
GO:0048002	antigen processing and presentation of peptide antigen	0.0253775944494857
GO:0019882	antigen processing and presentation	0.0389747969703214

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
intestinal epithelial cell	2.97e-11	9
epithelial cell of alimentary canal	2.97e-11	9
brush border epithelial cell	1.03e-07	6
gut absorptive cell	1.03e-07	6
absorptive cell	1.03e-07	6
enterocyte	1.03e-07	6

Uber Anatomy

Ontology term	p-value	n
gastrointestinal system	3.42e-22	47
endoderm-derived structure	8.26e-22	118
endoderm	8.26e-22	118
presumptive endoderm	8.26e-22	118
intestine	9.17e-22	31
digestive system	1.13e-21	116
digestive tract	1.13e-21	116
primitive gut	1.13e-21	116
subdivision of digestive tract	7.02e-20	114
mucosa	5.39e-18	15
intestinal mucosa	1.01e-15	13
anatomical wall	1.01e-15	13
wall of intestine	1.01e-15	13
gastrointestinal system mucosa	1.01e-15	13
organ component layer	1.15e-15	24
epithelium of mucosa	2.97e-11	9
gastrointestinal system epithelium	2.97e-11	9
intestinal epithelium	2.97e-11	9
simple columnar epithelium	1.07e-08	11
endo-epithelium	3.25e-08	69

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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