MCL coexpression mm9:1122

Phase1 CAGE Peaks

	Short description
Mm9::chr13:85428687..85428741,-	p2@Rasa1
Mm9::chr16:22009544..22009616,+	p1@Senp2
Mm9::chr1:157820335..157820389,-	p2@Cep350
Mm9::chr1:6204708..6204764,+	p1@Rb1cc1
Mm9::chr1:84835897..84835966,-	p1@Trip12
Mm9::chr2:173485023..173485053,-	p1@Ppp4r1l-ps
Mm9::chr4:132478402..132478459,-	p1@Fam76a

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:0043066	negative regulation of apoptosis	0.0245418935033708
GO:0043069	negative regulation of programmed cell death	0.0245418935033708
GO:0016926	protein desumoylation	0.0245418935033708
GO:0045793	positive regulation of cell size	0.0404766219854952
GO:0043687	post-translational protein modification	0.0404766219854952
GO:0006464	protein modification process	0.045608620385925
GO:0043412	biopolymer modification	0.045608620385925
GO:0042981	regulation of apoptosis	0.045608620385925
GO:0043067	regulation of programmed cell death	0.045608620385925
GO:0006512	ubiquitin cycle	0.045608620385925
GO:0009887	organ morphogenesis	0.045608620385925
GO:0001889	liver development	0.045608620385925
GO:0043524	negative regulation of neuron apoptosis	0.045608620385925
GO:0001934	positive regulation of protein amino acid phosphorylation	0.045608620385925
GO:0033240	positive regulation of amine metabolic process	0.045608620385925
GO:0045764	positive regulation of amino acid metabolic process	0.045608620385925
GO:0006915	apoptosis	0.045608620385925
GO:0001570	vasculogenesis	0.045608620385925
GO:0012501	programmed cell death	0.045608620385925
GO:0008219	cell death	0.045608620385925
GO:0016265	death	0.045608620385925
GO:0001726	ruffle	0.045608620385925
GO:0043523	regulation of neuron apoptosis	0.045608620385925
GO:0051402	neuron apoptosis	0.045608620385925
GO:0007254	JNK cascade	0.045608620385925
GO:0031098	stress-activated protein kinase signaling pathway	0.045608620385925
GO:0051028	mRNA transport	0.045608620385925
GO:0044267	cellular protein metabolic process	0.045608620385925
GO:0044260	cellular macromolecule metabolic process	0.045608620385925
GO:0050658	RNA transport	0.045608620385925
GO:0051236	establishment of RNA localization	0.045608620385925
GO:0050657	nucleic acid transport	0.045608620385925
GO:0006403	RNA localization	0.045608620385925
GO:0005643	nuclear pore	0.045608620385925
GO:0048523	negative regulation of cellular process	0.045608620385925
GO:0033238	regulation of amine metabolic process	0.045608620385925
GO:0001932	regulation of protein amino acid phosphorylation	0.045608620385925
GO:0006521	regulation of amino acid metabolic process	0.045608620385925
GO:0019538	protein metabolic process	0.045608620385925
GO:0065002	intracellular protein transport across a membrane	0.045608620385925
GO:0015931	nucleobase, nucleoside, nucleotide and nucleic acid transport	0.045608620385925
GO:0042325	regulation of phosphorylation	0.045608620385925
GO:0051174	regulation of phosphorus metabolic process	0.045608620385925
GO:0046930	pore complex	0.045608620385925
GO:0019220	regulation of phosphate metabolic process	0.045608620385925
GO:0048519	negative regulation of biological process	0.0475471885050719
GO:0044453	nuclear membrane part	0.0475471885050719
GO:0031965	nuclear membrane	0.0480751614853807

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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