MCL coexpression mm9:1960

Phase1 CAGE Peaks

	Short description
Mm9::chr11:30097900..30097962,-	p4@Spnb2
Mm9::chr11:30097993..30098009,-	p9@Spnb2
Mm9::chr16:32079210..32079245,-	p2@Pak2
Mm9::chr1:108693264..108693290,-	p2@Vps4b

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:0007184	SMAD protein nuclear translocation	0.023505369832511
GO:0007182	common-partner SMAD protein phosphorylation	0.023505369832511
GO:0016043	cellular component organization and biogenesis	0.023505369832511
GO:0000060	protein import into nucleus, translocation	0.023505369832511
GO:0046907	intracellular transport	0.023505369832511
GO:0051016	barbed-end actin filament capping	0.023505369832511
GO:0006468	protein amino acid phosphorylation	0.023505369832511
GO:0030835	negative regulation of actin filament depolymerization	0.023505369832511
GO:0016197	endosome transport	0.023505369832511
GO:0051693	actin filament capping	0.023505369832511
GO:0065008	regulation of biological quality	0.023505369832511
GO:0015031	protein transport	0.023505369832511
GO:0030834	regulation of actin filament depolymerization	0.023505369832511
GO:0030042	actin filament depolymerization	0.023505369832511
GO:0045184	establishment of protein localization	0.023505369832511
GO:0016310	phosphorylation	0.023505369832511
GO:0008104	protein localization	0.023505369832511
GO:0051649	establishment of cellular localization	0.023505369832511
GO:0051641	cellular localization	0.023505369832511
GO:0033036	macromolecule localization	0.023505369832511
GO:0008064	regulation of actin polymerization and/or depolymerization	0.023505369832511
GO:0051261	protein depolymerization	0.023505369832511
GO:0032535	regulation of cellular component size	0.023505369832511
GO:0032956	regulation of actin cytoskeleton organization and biogenesis	0.023505369832511
GO:0030832	regulation of actin filament length	0.023505369832511
GO:0006793	phosphorus metabolic process	0.023505369832511
GO:0006796	phosphate metabolic process	0.023505369832511
GO:0046777	protein amino acid autophosphorylation	0.023505369832511
GO:0051129	negative regulation of cellular component organization and biogenesis	0.023505369832511
GO:0051493	regulation of cytoskeleton organization and biogenesis	0.023505369832511
GO:0033043	regulation of organelle organization and biogenesis	0.023505369832511
GO:0016540	protein autoprocessing	0.023505369832511
GO:0008154	actin polymerization and/or depolymerization	0.0260421011217123
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0290580191680682
GO:0051128	regulation of cellular component organization and biogenesis	0.0330672621854049
GO:0006606	protein import into nucleus	0.0330672621854049
GO:0051170	nuclear import	0.0330672621854049
GO:0017038	protein import	0.0361372200379347
GO:0016485	protein processing	0.0363069733211408
GO:0051248	negative regulation of protein metabolic process	0.0364680038533275
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.0388782075728654
GO:0005524	ATP binding	0.0388782075728654
GO:0001558	regulation of cell growth	0.0388782075728654
GO:0043687	post-translational protein modification	0.0388782075728654
GO:0032559	adenyl ribonucleotide binding	0.0388782075728654
GO:0030554	adenyl nucleotide binding	0.0410937028247581
GO:0006913	nucleocytoplasmic transport	0.0410937028247581
GO:0051169	nuclear transport	0.0410937028247581
GO:0016049	cell growth	0.0410937028247581
GO:0005516	calmodulin binding	0.0442380715621946
GO:0008361	regulation of cell size	0.0442380715621946
GO:0006464	protein modification process	0.0442380715621946
GO:0043412	biopolymer modification	0.0466962383095633
GO:0032553	ribonucleotide binding	0.0488271768818765
GO:0032555	purine ribonucleotide binding	0.0488271768818765

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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