MCL coexpression mm9:760

Phase1 CAGE Peaks

	Short description
Mm9::chr10:23069666..23069687,-	p5@Eya4
Mm9::chr10:37035191..37035196,+	p@chr10:37035191..37035196 +
Mm9::chr13:98786130..98786139,-	p11@Rgnef
Mm9::chr14:112177430..112177435,-	p@chr14:112177430..112177435 -
Mm9::chr3:66023831..66023849,+	p2@Ptx3
Mm9::chr3:66023864..66023873,+	p3@Ptx3
Mm9::chr3:66029440..66029442,+	p@chr3:66029440..66029442 +
Mm9::chr4:140268695..140268697,+	p@chr4:140268695..140268697 +
Mm9::chr8:107897165..107897177,+	p1@Plekhg4

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:0005085	guanyl-nucleotide exchange factor activity	0.0242392330827444
GO:0048666	neuron development	0.0242392330827444
GO:0007417	central nervous system development	0.0242392330827444
GO:0030182	neuron differentiation	0.0242392330827444
GO:0030695	GTPase regulator activity	0.0242392330827444
GO:0048699	generation of neurons	0.0242392330827444
GO:0060052	neurofilament cytoskeleton organization and biogenesis	0.0242392330827444
GO:0021955	central nervous system neuron axonogenesis	0.0242392330827444
GO:0022008	neurogenesis	0.0242392330827444
GO:0030901	midbrain development	0.0262535463198016
GO:0045104	intermediate filament cytoskeleton organization and biogenesis	0.0368669614433751
GO:0045103	intermediate filament-based process	0.038522481583093
GO:0021954	central nervous system neuron development	0.038522481583093
GO:0021953	central nervous system neuron differentiation	0.0408709206211934
GO:0007275	multicellular organismal development	0.0421558894881009
GO:0007399	nervous system development	0.0447041300673786

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
forelimb	4.58e-09	7
pectoral appendage	4.58e-09	7
pectoral appendage bud	4.58e-09	7
forelimb bud	4.58e-09	7
forelimb/pectoral fin field	4.58e-09	7
appendage	8.74e-09	12
paired limb/fin	8.74e-09	12
limb	8.74e-09	12
paired limb/fin bud	8.74e-09	12
limb bud	8.74e-09	12
limb/fin field	8.74e-09	12
limb field	8.74e-09	12
appendage girdle complex	5.49e-08	13
pectoral complex	8.02e-08	8

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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