MCL coexpression mm9:1049

Phase1 CAGE Peaks

	Short description
Mm9::chr10:86954204..86954231,-	p@chr10:86954204..86954231 -
Mm9::chr10:86954608..86954619,-	p@chr10:86954608..86954619 -
Mm9::chr10:86955227..86955238,-	p@chr10:86955227..86955238 -
Mm9::chr10:86956396..86956411,-	p1@Ascl1
Mm9::chr13:83871972..83871975,+	p2@C130071C03Rik
Mm9::chr5:124801192..124801233,-	p4@Cdk2ap1
Mm9::chr7:29086791..29086810,-	p1@Dll3

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:0001709	cell fate determination	0.000516535071736775
GO:0007219	Notch signaling pathway	0.00114520659288295
GO:0045165	cell fate commitment	0.00213663507368652
GO:0014017	neuroblast fate commitment	0.00213663507368652
GO:0014016	neuroblast differentiation	0.00213663507368652
GO:0007400	neuroblast fate determination	0.00213663507368652
GO:0060165	regulation of timing of subpallium neuron differentiation	0.00213663507368652
GO:0060164	regulation of timing of neuron differentiation	0.00213663507368652
GO:0060163	subpallium neuron fate commitment	0.00379825424110381
GO:0007389	pattern specification process	0.00506273949032288
GO:0048505	regulation of timing of cell differentiation	0.00610333384880086
GO:0007386	compartment specification	0.00610333384880086
GO:0040034	regulation of development, heterochronic	0.00610333384880086
GO:0021544	subpallium development	0.00610333384880086
GO:0005112	Notch binding	0.00683535936358031
GO:0048339	paraxial mesoderm development	0.0138789988942662
GO:0007399	nervous system development	0.0199200831650066
GO:0048663	neuron fate commitment	0.0199200831650066
GO:0021537	telencephalon development	0.0206666928430308
GO:0007405	neuroblast proliferation	0.0219455261865678
GO:0045664	regulation of neuron differentiation	0.0219455261865678
GO:0001756	somitogenesis	0.0255946941180428
GO:0010001	glial cell differentiation	0.0281835305557912
GO:0042063	gliogenesis	0.0286519160840723
GO:0035282	segmentation	0.0286519160840723
GO:0007498	mesoderm development	0.0321292377309846
GO:0001764	neuron migration	0.0347163224574104

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	1.21e-20	33
neuronal stem cell	1.21e-20	33
neuroblast	1.21e-20	33
electrically signaling cell	1.21e-20	33
neural cell	4.52e-18	43
ectodermal cell	2.36e-17	44
neurectodermal cell	2.36e-17	44
electrically responsive cell	1.37e-15	39
electrically active cell	1.37e-15	39
non-terminally differentiated cell	3.06e-14	49
CNS neuron (sensu Vertebrata)	2.75e-13	23
neuroblast (sensu Vertebrata)	2.75e-13	23
autonomic neuron	7.94e-10	9

Uber Anatomy

Ontology term	p-value	n
central nervous system	2.62e-29	73
nervous system	6.27e-28	75
ectoderm-derived structure	3.13e-27	95
ectoderm	3.13e-27	95
presumptive ectoderm	3.13e-27	95
neurectoderm	2.23e-25	64
neural plate	2.23e-25	64
presumptive neural plate	2.23e-25	64
ecto-epithelium	7.33e-20	73
pre-chordal neural plate	1.43e-18	49
neural tube	3.67e-17	52
neural rod	3.67e-17	52
future spinal cord	3.67e-17	52
neural keel	3.67e-17	52
regional part of nervous system	4.53e-17	54
structure with developmental contribution from neural crest	1.16e-14	92
brain	2.23e-14	47
future brain	2.23e-14	47
regional part of brain	6.86e-14	46
anterior neural tube	2.02e-13	40
regional part of forebrain	7.63e-13	39
forebrain	7.63e-13	39
future forebrain	7.63e-13	39
autonomic nervous system	7.94e-10	9
gray matter	1.30e-09	34
diencephalon	1.13e-07	10
future diencephalon	1.13e-07	10
peripheral nervous system	2.01e-07	11
pituitary gland	2.95e-07	8
gland of diencephalon	2.95e-07	8
neuroendocrine gland	2.95e-07	8
brain grey matter	3.41e-07	29
regional part of telencephalon	3.41e-07	29
telencephalon	3.41e-07	29

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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