MCL coexpression mm9:341

Phase1 CAGE Peaks

	Short description
Mm9::chr11:116135416..116135452,-	p1@Srp68
Mm9::chr12:60230744..60230805,+	p3@Ctage5
Mm9::chr13:73741583..73741594,+	p3@Clptm1l
Mm9::chr16:11134590..11134605,-	p4@Txndc11
Mm9::chr16:38562934..38562974,+	p1@Tmem39a
Mm9::chr1:13579798..13579985,-	p1@Tram1
Mm9::chr1:75432577..75432588,+	p2@Gmppa
Mm9::chr2:143836938..143836972,-	p1@Rrbp1
Mm9::chr3:115710258..115710314,-	p1@Slc30a7
Mm9::chr3:58329035..58329050,+	p@chr3:58329035..58329050 +
Mm9::chr3:58329639..58329650,-	p3@Serp1
Mm9::chr3:58329664..58329683,-	p1@Serp1
Mm9::chr3:58329690..58329710,-	p2@Serp1
Mm9::chr5:115608144..115608168,-	p1@Mlec
Mm9::chr5:130698198..130698260,+	p1@0610007L01Rik
Mm9::chr5:31171996..31172037,+	p1@Tmem214
Mm9::chr6:88468729..88468751,-	p2@Sec61a1
Mm9::chr8:26830514..26830525,+	p3@Ppapdc1b
Mm9::chr8:26830526..26830571,+	p1@Ppapdc1b
Mm9::chr9:103965379..103965476,-	p1@Uba5
Mm9::chr9:35018762..35018809,+	p1@Srpr
Mm9::chr9:35018814..35018833,+	p2@Srpr
Mm9::chr9:65908002..65908080,+	p1@Ppib

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:0048500	signal recognition particle	0.00597732630773684
GO:0005786	signal recognition particle, endoplasmic reticulum targeting	0.00597732630773684
GO:0005783	endoplasmic reticulum	0.00597732630773684
GO:0065002	intracellular protein transport across a membrane	0.0260779050019175
GO:0005047	signal recognition particle binding	0.0260779050019175
GO:0005789	endoplasmic reticulum membrane	0.0315120351101235
GO:0042175	nuclear envelope-endoplasmic reticulum network	0.0315120351101235
GO:0005785	signal recognition particle receptor complex	0.0315120351101235
GO:0044432	endoplasmic reticulum part	0.0315120351101235
GO:0006886	intracellular protein transport	0.0400770095428246
GO:0008312	7S RNA binding	0.0400770095428246
GO:0005791	rough endoplasmic reticulum	0.0400770095428246
GO:0030867	rough endoplasmic reticulum membrane	0.0400770095428246

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
trunk	4.96e-13	90
immaterial anatomical entity	8.07e-11	79
trunk region element	8.50e-11	79
trunk mesenchyme	9.96e-11	45
mesenchyme	3.48e-09	61
entire embryonic mesenchyme	3.48e-09	61
exocrine gland	4.39e-09	25
exocrine system	4.39e-09	25
endoderm-derived structure	1.23e-08	118
endoderm	1.23e-08	118
presumptive endoderm	1.23e-08	118
pancreas	1.53e-08	12
digestive system	6.60e-08	116
digestive tract	6.60e-08	116
primitive gut	6.60e-08	116
digestive tract diverticulum	1.31e-07	23
sac	1.31e-07	23
intestine	1.84e-07	31
gastrointestinal system	2.08e-07	47
liver	2.36e-07	22
epithelial sac	2.36e-07	22
digestive gland	2.36e-07	22
epithelium of foregut-midgut junction	2.36e-07	22
anatomical boundary	2.36e-07	22
hepatobiliary system	2.36e-07	22
foregut-midgut junction	2.36e-07	22
hepatic diverticulum	2.36e-07	22
liver primordium	2.36e-07	22
septum transversum	2.36e-07	22
liver bud	2.36e-07	22
subdivision of digestive tract	2.44e-07	114

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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