MCL coexpression mm9:1361

Phase1 CAGE Peaks

	Short description
Mm9::chr14:37781865..37781924,-	p1@Gcap14
Mm9::chr3:107499380..107499492,-	p1@Ahcyl1
Mm9::chr3:87421463..87421535,+	p1@Arhgef11
Mm9::chr4:154865462..154865520,+	p1@Gnb1
Mm9::chr7:104937295..104937344,+	p5@Pak1
Mm9::chrX:20240024..20240035,+	p3@Uba1

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:0007603	phototransduction, visible light	0.028009667856003
GO:0007265	Ras protein signal transduction	0.028009667856003
GO:0004013	adenosylhomocysteinase activity	0.028009667856003
GO:0016802	trialkylsulfonium hydrolase activity	0.028009667856003
GO:0009628	response to abiotic stimulus	0.028009667856003
GO:0007213	acetylcholine receptor signaling, muscarinic pathway	0.028009667856003
GO:0006972	hyperosmotic response	0.028009667856003
GO:0004839	ubiquitin activating enzyme activity	0.0306322172622778
GO:0016801	hydrolase activity, acting on ether bonds	0.0326707847199443
GO:0008641	small protein activating enzyme activity	0.0391963502129323
GO:0006970	response to osmotic stress	0.0488628921394105
GO:0007264	small GTPase mediated signal transduction	0.0488628921394105
GO:0030010	establishment of cell polarity	0.0489685997794773

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
embryonic cell	1.28e-13	70
electrically responsive cell	1.25e-10	39
electrically active cell	1.25e-10	39
non-terminally differentiated cell	4.48e-10	49
CNS neuron (sensu Vertebrata)	1.06e-09	23
neuroblast (sensu Vertebrata)	1.06e-09	23
neuron	6.14e-09	33
neuronal stem cell	6.14e-09	33
neuroblast	6.14e-09	33
electrically signaling cell	6.14e-09	33
ectodermal cell	1.55e-08	44
neurectodermal cell	1.55e-08	44
neural cell	2.08e-08	43

Uber Anatomy

Ontology term	p-value	n
nervous system	1.92e-19	75
central nervous system	2.64e-19	73
regional part of nervous system	2.27e-18	54
ectoderm-derived structure	2.20e-17	95
ectoderm	2.20e-17	95
presumptive ectoderm	2.20e-17	95
neural tube	2.98e-17	52
neural rod	2.98e-17	52
future spinal cord	2.98e-17	52
neural keel	2.98e-17	52
brain	1.19e-14	47
future brain	1.19e-14	47
neurectoderm	1.21e-14	64
neural plate	1.21e-14	64
presumptive neural plate	1.21e-14	64
gray matter	2.13e-14	34
ecto-epithelium	2.64e-14	73
regional part of brain	2.97e-14	46
anterior neural tube	1.01e-12	40
regional part of forebrain	3.19e-12	39
forebrain	3.19e-12	39
future forebrain	3.19e-12	39
brain grey matter	4.56e-12	29
regional part of telencephalon	4.56e-12	29
telencephalon	4.56e-12	29
pre-chordal neural plate	8.11e-11	49
organ system subdivision	1.84e-08	194
cerebral cortex	2.40e-08	21
cerebral hemisphere	2.40e-08	21
pallium	2.40e-08	21
regional part of cerebral cortex	3.53e-08	17
structure with developmental contribution from neural crest	6.89e-08	92
intestine	1.94e-07	31
anatomical cluster	6.45e-07	244

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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