MCL coexpression mm9:596

Phase1 CAGE Peaks

	Short description
Mm9::chr11:104171642..104171655,+	p@chr11:104171642..104171655 +
Mm9::chr11:104171701..104171731,+	p@chr11:104171701..104171731 +
Mm9::chr12:73313193..73313244,-	p@chr12:73313193..73313244 -
Mm9::chr12:73313326..73313392,-	p@chr12:73313326..73313392 -
Mm9::chr12:73324386..73324412,-	p@chr12:73324386..73324412 -
Mm9::chr15:44579907..44579923,-	p7@Sybu
Mm9::chr16:20619899..20619944,-	p@chr16:20619899..20619944 -
Mm9::chr16:42249172..42249185,-	p@chr16:42249172..42249185 -
Mm9::chr1:84692327..84692341,-	p5@Dner
Mm9::chr1:84692342..84692353,-	p6@Dner
Mm9::chr3:95023823..95023839,-	p@chr3:95023823..95023839 -
Mm9::chr8:96334719..96334728,+	p13@Gnao1

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:0043005	neuron projection	0.01507268662812
GO:0007220	Notch receptor processing	0.0206975803128446
GO:0005112	Notch binding	0.0206975803128446
GO:0005519	cytoskeletal regulatory protein binding	0.0206975803128446
GO:0042995	cell projection	0.0206975803128446
GO:0051605	protein maturation via proteolysis	0.0206975803128446
GO:0007026	negative regulation of microtubule depolymerization	0.0206975803128446
GO:0051604	protein maturation	0.0206975803128446
GO:0031114	regulation of microtubule depolymerization	0.0206975803128446
GO:0007019	microtubule depolymerization	0.0206975803128446
GO:0031111	negative regulation of microtubule polymerization or depolymerization	0.0206975803128446
GO:0031110	regulation of microtubule polymerization or depolymerization	0.0222860376811327
GO:0031109	microtubule polymerization or depolymerization	0.0222860376811327
GO:0007212	dopamine receptor signaling pathway	0.0266009680357124
GO:0051261	protein depolymerization	0.0413067546960271
GO:0005834	heterotrimeric G-protein complex	0.0413067546960271
GO:0051129	negative regulation of cellular component organization and biogenesis	0.0413067546960271
GO:0008016	regulation of heart contraction	0.0413067546960271
GO:0010001	glial cell differentiation	0.0413067546960271
GO:0042063	gliogenesis	0.0413067546960271
GO:0060047	heart contraction	0.0413067546960271
GO:0003015	heart process	0.0413067546960271
GO:0030425	dendrite	0.0413067546960271
GO:0019897	extrinsic to plasma membrane	0.0413067546960271
GO:0007219	Notch signaling pathway	0.0413067546960271
GO:0051128	regulation of cellular component organization and biogenesis	0.0426065032114335
GO:0043025	cell soma	0.0426065032114335
GO:0030424	axon	0.0426065032114335
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0426065032114335
GO:0048741	skeletal muscle fiber development	0.0426065032114335
GO:0048747	muscle fiber development	0.0426065032114335
GO:0051248	negative regulation of protein metabolic process	0.043139354940474
GO:0019898	extrinsic to membrane	0.043139354940474

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
CNS neuron (sensu Vertebrata)	2.89e-20	23
neuroblast (sensu Vertebrata)	2.89e-20	23
neuron	1.67e-17	33
neuronal stem cell	1.67e-17	33
neuroblast	1.67e-17	33
electrically signaling cell	1.67e-17	33
neural cell	7.82e-17	43
ectodermal cell	3.83e-16	44
neurectodermal cell	3.83e-16	44
non-terminally differentiated cell	3.75e-13	49
electrically responsive cell	5.00e-13	39
electrically active cell	5.00e-13	39

Uber Anatomy

Ontology term	p-value	n
central nervous system	5.16e-39	73
nervous system	2.84e-37	75
neurectoderm	5.46e-36	64
neural plate	5.46e-36	64
presumptive neural plate	5.46e-36	64
regional part of nervous system	3.43e-35	54
neural tube	4.48e-33	52
neural rod	4.48e-33	52
future spinal cord	4.48e-33	52
neural keel	4.48e-33	52
ectoderm-derived structure	8.47e-32	95
ectoderm	8.47e-32	95
presumptive ectoderm	8.47e-32	95
ecto-epithelium	1.22e-28	73
brain	6.44e-28	47
future brain	6.44e-28	47
regional part of brain	3.31e-27	46
gray matter	3.52e-27	34
pre-chordal neural plate	1.14e-25	49
anterior neural tube	2.87e-24	40
regional part of forebrain	2.12e-23	39
forebrain	2.12e-23	39
future forebrain	2.12e-23	39
structure with developmental contribution from neural crest	1.30e-22	92
brain grey matter	3.20e-22	29
regional part of telencephalon	3.20e-22	29
telencephalon	3.20e-22	29
cerebral cortex	1.07e-15	21
cerebral hemisphere	1.07e-15	21
pallium	1.07e-15	21
regional part of cerebral cortex	5.81e-13	17
posterior neural tube	5.03e-09	12
chordal neural plate	5.03e-09	12
occipital lobe	8.06e-09	10
visual cortex	8.06e-09	10
neocortex	8.06e-09	10
basal ganglion	1.13e-07	8
nuclear complex of neuraxis	1.13e-07	8
aggregate regional part of brain	1.13e-07	8
collection of basal ganglia	1.13e-07	8
cerebral subcortex	1.13e-07	8
spinal cord	8.68e-07	6
dorsal region element	8.68e-07	6
dorsum	8.68e-07	6

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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