MCL coexpression mm9:814

Phase1 CAGE Peaks

	Short description
Mm9::chr13:105018882..105018908,-	p1@Ppwd1
Mm9::chr17:33822331..33822355,-	p1@Hnrnpm
Mm9::chr17:56723930..56723991,-	p1@Safb2
Mm9::chr3:66789622..66789662,+	p2@Rsrc1
Mm9::chr5:114221652..114221668,-	p1@Sart3
Mm9::chr5:130007098..130007128,+	p1@Sfswap
Mm9::chr7:130267686..130267737,+	p1@Tnrc6a
Mm9::chr7:52651042..52651089,-	p1@Snrnp70
Mm9::chrX:159198320..159198347,+	p2@Rbbp7

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:0016070	RNA metabolic process	0.0150867558753302
GO:0005634	nucleus	0.0150867558753302
GO:0003723	RNA binding	0.0150867558753302
GO:0010467	gene expression	0.0150867558753302
GO:0003676	nucleic acid binding	0.0150867558753302
GO:0005681	spliceosome	0.0150867558753302
GO:0043229	intracellular organelle	0.0150867558753302
GO:0043226	organelle	0.0150867558753302
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0178250023094147
GO:0016581	NuRD complex	0.0257457024294881
GO:0044424	intracellular part	0.035962871102759
GO:0044428	nuclear part	0.035962871102759
GO:0005622	intracellular	0.0388715845836407
GO:0044446	intracellular organelle part	0.0388715845836407
GO:0044422	organelle part	0.0388715845836407
GO:0006396	RNA processing	0.0388715845836407
GO:0043283	biopolymer metabolic process	0.0388715845836407
GO:0043231	intracellular membrane-bound organelle	0.0388715845836407
GO:0043227	membrane-bound organelle	0.0388715845836407
GO:0000118	histone deacetylase complex	0.0403579234012077

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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