MCL coexpression mm9:703

Phase1 CAGE Peaks

	Short description
Mm9::chr11:117864832..117864836,+	p@chr11:117864832..117864836 +
Mm9::chr13:109106534..109106552,+	p2@Depdc1b
Mm9::chr13:109106560..109106581,+	p1@Depdc1b
Mm9::chr19:41876518..41876550,-	p1@Arhgap19
Mm9::chr1:163001055..163001137,+	p1@Cenpl
Mm9::chr5:100929640..100929676,-	p1@Lin54
Mm9::chr7:56136974..56136989,-	p4@E2f8
Mm9::chr8:13338760..13338817,+	p1@Tfdp1
Mm9::chr8:59990690..59990727,+	p2@Hmgb2
Mm9::chr8:86479602..86479620,+	p1@Asf1b

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:0044427	chromosomal part	0.0127685499686556
GO:0005694	chromosome	0.0127685499686556
GO:0044446	intracellular organelle part	0.0139725105329285
GO:0044422	organelle part	0.0139725105329285
GO:0005096	GTPase activator activity	0.0224643601242763
GO:0000785	chromatin	0.0224643601242763
GO:0008047	enzyme activator activity	0.0224643601242763
GO:0006355	regulation of transcription, DNA-dependent	0.0224643601242763
GO:0051320	S phase	0.0224643601242763
GO:0000084	S phase of mitotic cell cycle	0.0224643601242763
GO:0006351	transcription, DNA-dependent	0.0224643601242763
GO:0032774	RNA biosynthetic process	0.0224643601242763
GO:0045449	regulation of transcription	0.0224643601242763
GO:0042393	histone binding	0.0224643601242763
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0224643601242763
GO:0006350	transcription	0.0224643601242763
GO:0010468	regulation of gene expression	0.0239082879941344
GO:0031323	regulation of cellular metabolic process	0.0252058166618859
GO:0006323	DNA packaging	0.0252058166618859
GO:0019222	regulation of metabolic process	0.0258087628220274
GO:0030695	GTPase regulator activity	0.0258087628220274
GO:0016070	RNA metabolic process	0.0258892407357442
GO:0005622	intracellular	0.0258892407357442
GO:0005634	nucleus	0.028991300623026
GO:0051726	regulation of cell cycle	0.0306296449022977
GO:0005667	transcription factor complex	0.0413136355770511
GO:0010467	gene expression	0.0423535075445992

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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