MCL coexpression mm9:3696

Phase1 CAGE Peaks

	Short description
Mm9::chr9:108997764..108997785,+	p3@Plxnb1
Mm9::chr9:108998289..108998318,-	p@chr9:108998289..108998318 -
Mm9::chr9:108998327..108998340,-	p@chr9:108998327..108998340 -

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:0050772	positive regulation of axonogenesis	0.0180792198542705
GO:0050769	positive regulation of neurogenesis	0.0180792198542705
GO:0050770	regulation of axonogenesis	0.0241056264723607
GO:0050767	regulation of neurogenesis	0.0271188297814058
GO:0051094	positive regulation of developmental process	0.0332657645318578
GO:0007409	axonogenesis	0.0417328658302745
GO:0048667	neuron morphogenesis during differentiation	0.0417328658302745
GO:0048812	neurite morphogenesis	0.0417328658302745
GO:0000904	cellular morphogenesis during differentiation	0.0417328658302745
GO:0031175	neurite development	0.0417328658302745
GO:0048666	neuron development	0.0417328658302745
GO:0050793	regulation of developmental process	0.0417328658302745
GO:0032990	cell part morphogenesis	0.0417328658302745
GO:0030030	cell projection organization and biogenesis	0.0417328658302745
GO:0048858	cell projection morphogenesis	0.0417328658302745
GO:0030182	neuron differentiation	0.0417328658302745
GO:0048699	generation of neurons	0.0446663078752566
GO:0022008	neurogenesis	0.0452650097092107

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><br>

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Cell Type

Ontology term	p-value	n
neuron	2.38e-10	33
neuronal stem cell	2.38e-10	33
neuroblast	2.38e-10	33
electrically signaling cell	2.38e-10	33
ectodermal cell	4.32e-09	44
neurectodermal cell	4.32e-09	44
neural cell	8.14e-09	43
electrically responsive cell	3.75e-07	39
electrically active cell	3.75e-07	39
autonomic neuron	7.61e-07	9

Uber Anatomy

Ontology term	p-value	n
multi-cellular organism	3.57e-10	333
ectoderm-derived structure	1.05e-09	95
ectoderm	1.05e-09	95
presumptive ectoderm	1.05e-09	95
embryo	9.63e-09	320
structure with developmental contribution from neural crest	2.10e-08	92
central nervous system	4.23e-08	73
ecto-epithelium	5.01e-08	73
neurectoderm	7.49e-08	64
neural plate	7.49e-08	64
presumptive neural plate	7.49e-08	64
nervous system	1.39e-07	75
pre-chordal neural plate	6.41e-07	49
autonomic nervous system	7.61e-07	9

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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