MCL coexpression mm9:986

Phase1 CAGE Peaks

	Short description
Mm9::chr2:164286731..164286784,+	p3@Sys1
Mm9::chr9:95307527..95307538,-	p9@Chst2
Mm9::chr9:95307603..95307610,-	p8@Chst2
Mm9::chr9:95307620..95307631,-	p6@Chst2
Mm9::chr9:95307646..95307658,-	p4@Chst2
Mm9::chr9:95307659..95307695,-	p1@Chst2
Mm9::chr9:95307700..95307718,-	p3@Chst2
Mm9::chr9:95307769..95307780,-	p5@Chst2

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:0005794	Golgi apparatus	0.0275945020412737
GO:0006041	glucosamine metabolic process	0.0275945020412737
GO:0006044	N-acetylglucosamine metabolic process	0.0275945020412737
GO:0006040	amino sugar metabolic process	0.0275945020412737
GO:0008146	sulfotransferase activity	0.0390632786382272
GO:0016782	transferase activity, transferring sulfur-containing groups	0.0390632786382272

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
ectodermal cell	6.99e-09	44
neurectodermal cell	6.99e-09	44
neural cell	2.10e-08	43
CNS neuron (sensu Vertebrata)	8.88e-08	23
neuroblast (sensu Vertebrata)	8.88e-08	23
non-terminally differentiated cell	2.52e-07	49

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	2.82e-21	54
nervous system	6.78e-21	75
central nervous system	1.64e-20	73
neural tube	2.98e-20	52
neural rod	2.98e-20	52
future spinal cord	2.98e-20	52
neural keel	2.98e-20	52
brain	7.30e-18	47
future brain	7.30e-18	47
regional part of brain	2.37e-17	46
neurectoderm	2.98e-17	64
neural plate	2.98e-17	64
presumptive neural plate	2.98e-17	64
ectoderm-derived structure	2.14e-16	95
ectoderm	2.14e-16	95
presumptive ectoderm	2.14e-16	95
gray matter	5.03e-15	34
ecto-epithelium	1.00e-14	73
anterior neural tube	1.05e-14	40
regional part of forebrain	2.32e-14	39
forebrain	2.32e-14	39
future forebrain	2.32e-14	39
pre-chordal neural plate	1.14e-13	49
brain grey matter	1.16e-12	29
regional part of telencephalon	1.16e-12	29
telencephalon	1.16e-12	29
structure with developmental contribution from neural crest	1.06e-10	92
cerebral cortex	3.03e-09	21
cerebral hemisphere	3.03e-09	21
pallium	3.03e-09	21
pancreas	1.10e-08	12
regional part of cerebral cortex	2.46e-08	17
occipital lobe	8.39e-07	10
visual cortex	8.39e-07	10
neocortex	8.39e-07	10

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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