MCL coexpression mm9:562

Phase1 CAGE Peaks

	Short description
Mm9::chr11:57458919..57458991,+	p1@Galnt10
Mm9::chr11:84642483..84642525,-	p1@Dhrs11
Mm9::chr12:33063557..33063572,+	p3@2010109K11Rik
Mm9::chr17:15842061..15842106,+	p3@Chd1
Mm9::chr17:46290446..46290460,-	p1@Mad2l1bp
Mm9::chr18:24364438..24364503,+	p1@Galnt1
Mm9::chr1:75188578..75188590,-	p2@Atg9a
Mm9::chr6:142705230..142705276,+	p1@Cmas
Mm9::chr7:91032308..91032340,-	p@chr7:91032308..91032340 -
Mm9::chr9:107996790..107996818,-	p1@Apeh
Mm9::chr9:123587991..123587996,-	p3@Slc6a20a
Mm9::chr9:21069731..21069766,+	p1@Atg4d
Mm9::chrX:8849797..8849819,+	p3@Xk

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:0004653	polypeptide N-acetylgalactosaminyltransferase activity	0.000566725614251403
GO:0000045	autophagic vacuole formation	0.000679549177208376
GO:0016236	macroautophagy	0.000857777081629178
GO:0006493	protein amino acid O-linked glycosylation	0.000857777081629178
GO:0008376	acetylgalactosaminyltransferase activity	0.00115257757902626
GO:0006914	autophagy	0.00158621706421227
GO:0004254	acylaminoacyl-peptidase activity	0.00828835513765295
GO:0046380	N-acetylneuraminate biosynthetic process	0.00828835513765295
GO:0006055	CMP-N-acetylneuraminate biosynthetic process	0.00828835513765295
GO:0008781	N-acylneuraminate cytidylyltransferase activity	0.00828835513765295
GO:0044260	cellular macromolecule metabolic process	0.00828835513765295
GO:0006486	protein amino acid glycosylation	0.00878859766631657
GO:0043413	biopolymer glycosylation	0.00878859766631657
GO:0009101	glycoprotein biosynthetic process	0.00901964363343722
GO:0008194	UDP-glycosyltransferase activity	0.00901964363343722
GO:0010458	exit from mitosis	0.00923152984405496
GO:0007096	regulation of exit from mitosis	0.00923152984405496
GO:0046381	CMP-N-acetylneuraminate metabolic process	0.00923152984405496
GO:0009100	glycoprotein metabolic process	0.00923152984405496
GO:0046349	amino sugar biosynthetic process	0.012937405519242
GO:0030145	manganese ion binding	0.0132662260938459
GO:0016758	transferase activity, transferring hexosyl groups	0.0132662260938459
GO:0006623	protein targeting to vacuole	0.0132662260938459
GO:0031577	spindle checkpoint	0.0132662260938459
GO:0007094	mitotic cell cycle spindle assembly checkpoint	0.0132662260938459
GO:0004287	prolyl oligopeptidase activity	0.0132662260938459
GO:0006054	N-acetylneuraminate metabolic process	0.0153949239150981
GO:0009103	lipopolysaccharide biosynthetic process	0.0153949239150981
GO:0008653	lipopolysaccharide metabolic process	0.0178329689111877
GO:0009059	macromolecule biosynthetic process	0.0179453624259304
GO:0006464	protein modification process	0.0190818816704501
GO:0005529	sugar binding	0.0190818816704501
GO:0043170	macromolecule metabolic process	0.0190818816704501
GO:0005776	autophagic vacuole	0.0199408765789399
GO:0043412	biopolymer modification	0.0199408765789399
GO:0044267	cellular protein metabolic process	0.0218314779056188
GO:0009225	nucleotide-sugar metabolic process	0.0232749102562406
GO:0043283	biopolymer metabolic process	0.0238872510415754
GO:0019538	protein metabolic process	0.0238872510415754
GO:0016757	transferase activity, transferring glycosyl groups	0.0238872510415754
GO:0007093	mitotic cell cycle checkpoint	0.0272875016985292
GO:0030246	carbohydrate binding	0.0294478761128146
GO:0007034	vacuolar transport	0.032001503259874
GO:0044238	primary metabolic process	0.0342896104863733
GO:0033692	cellular polysaccharide biosynthetic process	0.0342896104863733
GO:0044237	cellular metabolic process	0.0342896104863733
GO:0000271	polysaccharide biosynthetic process	0.0347447506610004
GO:0006040	amino sugar metabolic process	0.0429267362778861
GO:0000075	cell cycle checkpoint	0.045421988369312
GO:0007088	regulation of mitosis	0.045421988369312
GO:0006612	protein targeting to membrane	0.045421988369312
GO:0006996	organelle organization and biogenesis	0.0467803401819175
GO:0044424	intracellular part	0.0484305767306152
GO:0009058	biosynthetic process	0.0495273173252612

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
gastrointestinal system	3.63e-13	47
intestine	1.19e-11	31
organ component layer	2.07e-11	24
digestive system	1.47e-10	116
digestive tract	1.47e-10	116
primitive gut	1.47e-10	116
endoderm-derived structure	2.42e-10	118
endoderm	2.42e-10	118
presumptive endoderm	2.42e-10	118
subdivision of digestive tract	1.05e-09	114
mucosa	1.08e-09	15
intestinal mucosa	1.48e-08	13
anatomical wall	1.48e-08	13
wall of intestine	1.48e-08	13
gastrointestinal system mucosa	1.48e-08	13
digestive tract diverticulum	2.46e-08	23
sac	2.46e-08	23
liver	6.54e-08	22
epithelial sac	6.54e-08	22
digestive gland	6.54e-08	22
epithelium of foregut-midgut junction	6.54e-08	22
anatomical boundary	6.54e-08	22
hepatobiliary system	6.54e-08	22
foregut-midgut junction	6.54e-08	22
hepatic diverticulum	6.54e-08	22
liver primordium	6.54e-08	22
septum transversum	6.54e-08	22
liver bud	6.54e-08	22
exocrine gland	1.02e-07	25
exocrine system	1.02e-07	25

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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