MCL coexpression mm9:950

Phase1 CAGE Peaks

	Short description
Mm9::chr13:78339134..78339185,-	p5@Nr2f1
Mm9::chr2:170557427..170557451,+	p3@Dok5
Mm9::chr2:53937900..53937952,-	p1@Rprm
Mm9::chr2:53937953..53937970,-	p2@Rprm
Mm9::chr4:22413866..22413881,-	p@chr4:22413866..22413881 -
Mm9::chr4:22415290..22415307,-	p2@Pou3f2
Mm9::chr4:22415443..22415506,-	p1@Pou3f2
Mm9::chr8:30330049..30330095,-	p1@Unc5d

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:0030900	forebrain development	0.0182440954919215
GO:0007399	nervous system development	0.0182440954919215
GO:0021985	neurohypophysis development	0.0182440954919215
GO:0021979	hypothalamus cell differentiation	0.0182440954919215
GO:0021854	hypothalamus development	0.0182440954919215
GO:0014002	astrocyte development	0.0182440954919215
GO:0007275	multicellular organismal development	0.0182440954919215
GO:0007420	brain development	0.0188232323511003
GO:0007417	central nervous system development	0.0262641336253937
GO:0048708	astrocyte differentiation	0.0272494907522483
GO:0048468	cell development	0.0272494907522483
GO:0005066	transmembrane receptor protein tyrosine kinase signaling protein activity	0.0272494907522483
GO:0032502	developmental process	0.0272494907522483
GO:0021761	limbic system development	0.0272494907522483
GO:0021782	glial cell development	0.0272494907522483
GO:0048699	generation of neurons	0.0272494907522483
GO:0022008	neurogenesis	0.0284510300394729
GO:0051726	regulation of cell cycle	0.0284510300394729
GO:0005158	insulin receptor binding	0.0284510300394729
GO:0021983	pituitary gland development	0.0346253249444564
GO:0005667	transcription factor complex	0.0346253249444564
GO:0043565	sequence-specific DNA binding	0.0346253249444564
GO:0021536	diencephalon development	0.0346253249444564
GO:0007346	regulation of progression through mitotic cell cycle	0.0346253249444564
GO:0040018	positive regulation of multicellular organism growth	0.0363934379296313
GO:0048731	system development	0.0363934379296313
GO:0048869	cellular developmental process	0.0364605932289762
GO:0030154	cell differentiation	0.0364605932289762
GO:0045927	positive regulation of growth	0.037227588631002
GO:0044451	nucleoplasm part	0.038908235570802
GO:0050770	regulation of axonogenesis	0.03957321597384
GO:0005654	nucleoplasm	0.03957321597384
GO:0022402	cell cycle process	0.03957321597384
GO:0032501	multicellular organismal process	0.0406879389792971
GO:0048856	anatomical structure development	0.0418516328902436
GO:0010001	glial cell differentiation	0.043772319167139
GO:0042063	gliogenesis	0.0455443637192678
GO:0031981	nuclear lumen	0.0455443637192678
GO:0007050	cell cycle arrest	0.0455443637192678
GO:0050767	regulation of neurogenesis	0.0455443637192678
GO:0003707	steroid hormone receptor activity	0.0455443637192678
GO:0004879	ligand-dependent nuclear receptor activity	0.0455443637192678
GO:0035270	endocrine system development	0.0455443637192678
GO:0032403	protein complex binding	0.0455443637192678
GO:0007049	cell cycle	0.0455443637192678
GO:0040014	regulation of multicellular organism growth	0.0464596593620089
GO:0031974	membrane-enclosed lumen	0.0464596593620089
GO:0043233	organelle lumen	0.0464596593620089
GO:0001764	neuron migration	0.0464596593620089

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	1.59e-18	44
neurectodermal cell	1.59e-18	44
neural cell	7.02e-18	43
neuron	4.82e-16	33
neuronal stem cell	4.82e-16	33
neuroblast	4.82e-16	33
electrically signaling cell	4.82e-16	33
non-terminally differentiated cell	1.56e-15	49
CNS neuron (sensu Vertebrata)	2.97e-14	23
neuroblast (sensu Vertebrata)	2.97e-14	23
electrically responsive cell	2.04e-13	39
electrically active cell	2.04e-13	39

Uber Anatomy

Ontology term	p-value	n
nervous system	1.52e-32	75
central nervous system	2.25e-32	73
ectoderm-derived structure	1.98e-29	95
ectoderm	1.98e-29	95
presumptive ectoderm	1.98e-29	95
neurectoderm	1.12e-25	64
neural plate	1.12e-25	64
presumptive neural plate	1.12e-25	64
regional part of nervous system	8.09e-25	54
neural tube	1.39e-23	52
neural rod	1.39e-23	52
future spinal cord	1.39e-23	52
neural keel	1.39e-23	52
ecto-epithelium	4.17e-23	73
brain	8.33e-21	47
future brain	8.33e-21	47
gray matter	1.28e-20	34
pre-chordal neural plate	1.90e-20	49
regional part of brain	2.91e-20	46
anterior neural tube	2.97e-19	40
structure with developmental contribution from neural crest	8.02e-19	92
regional part of forebrain	8.95e-19	39
forebrain	8.95e-19	39
future forebrain	8.95e-19	39
brain grey matter	9.16e-18	29
regional part of telencephalon	9.16e-18	29
telencephalon	9.16e-18	29
cerebral cortex	1.50e-13	21
cerebral hemisphere	1.50e-13	21
pallium	1.50e-13	21
regional part of cerebral cortex	8.15e-11	17
multi-cellular organism	3.44e-08	333
occipital lobe	5.24e-08	10
visual cortex	5.24e-08	10
neocortex	5.24e-08	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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