MCL coexpression mm9:841

Phase1 CAGE Peaks

	Short description
Mm9::chr1:34178286..34178303,+	p11@Dst
Mm9::chr1:34178314..34178329,+	p7@Dst
Mm9::chr5:122068874..122068934,-	p1@Acad12
Mm9::chr6:86466214..86466234,-	p1@uc009csb.1
Mm9::chr6:86466248..86466270,-	p3@uc009csb.1
Mm9::chr6:86466277..86466290,-	p4@uc009csb.1
Mm9::chr7:96781385..96781422,+	p2@Me3
Mm9::chr7:96781461..96781503,+	p5@Me3
Mm9::chrX:156576281..156576303,-	p1@Pdha1

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:0030056	hemidesmosome	0.00928461847680428
GO:0004473	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity	0.00928461847680428
GO:0004738	pyruvate dehydrogenase activity	0.00928461847680428
GO:0008090	retrograde axon cargo transport	0.00928461847680428
GO:0004739	pyruvate dehydrogenase (acetyl-transferring) activity	0.00928461847680428
GO:0044262	cellular carbohydrate metabolic process	0.00928461847680428
GO:0031122	cytoplasmic microtubule organization and biogenesis	0.00928461847680428
GO:0004470	malic enzyme activity	0.00928461847680428
GO:0006108	malate metabolic process	0.0103156775094049
GO:0005975	carbohydrate metabolic process	0.0104423344548168
GO:0016624	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor	0.0104423344548168
GO:0016615	malate dehydrogenase activity	0.0104423344548168
GO:0009925	basal plasma membrane	0.0104423344548168
GO:0060053	neurofilament cytoskeleton	0.0104423344548168
GO:0045178	basal part of cell	0.0104423344548168
GO:0043648	dicarboxylic acid metabolic process	0.0104423344548168
GO:0008088	axon cargo transport	0.0109194899359178
GO:0031110	regulation of microtubule polymerization or depolymerization	0.0134045032055733
GO:0031109	microtubule polymerization or depolymerization	0.0136750999806115
GO:0006100	tricarboxylic acid cycle intermediate metabolic process	0.0139185353958062
GO:0051287	NAD binding	0.019434306341141
GO:0044444	cytoplasmic part	0.0241329633513848
GO:0016491	oxidoreductase activity	0.0246206447328127
GO:0030055	cell-matrix junction	0.0270341658124554
GO:0016903	oxidoreductase activity, acting on the aldehyde or oxo group of donors	0.0281726907363467
GO:0005739	mitochondrion	0.0293869201483859
GO:0006096	glycolysis	0.0293869201483859
GO:0007050	cell cycle arrest	0.0293869201483859
GO:0008017	microtubule binding	0.0293869201483859
GO:0006007	glucose catabolic process	0.0296262072510759
GO:0046365	monosaccharide catabolic process	0.0296262072510759
GO:0019320	hexose catabolic process	0.0296262072510759
GO:0051128	regulation of cellular component organization and biogenesis	0.0296262072510759
GO:0015631	tubulin binding	0.0296262072510759
GO:0046164	alcohol catabolic process	0.0296262072510759
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0329035671846674
GO:0044275	cellular carbohydrate catabolic process	0.0330111061329209
GO:0016323	basolateral plasma membrane	0.0340829371096963
GO:0016052	carbohydrate catabolic process	0.0341540971008432
GO:0007018	microtubule-based movement	0.0383646209931261
GO:0006006	glucose metabolic process	0.0431054408632943
GO:0030705	cytoskeleton-dependent intracellular transport	0.0431054408632943
GO:0016616	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.0472273373491732
GO:0050662	coenzyme binding	0.0475000923347259
GO:0045786	negative regulation of progression through cell cycle	0.0475000923347259
GO:0016614	oxidoreductase activity, acting on CH-OH group of donors	0.0475000923347259
GO:0045111	intermediate filament cytoskeleton	0.0475000923347259
GO:0019318	hexose metabolic process	0.0499452758871698

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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