MCL coexpression mm9:1494

Phase1 CAGE Peaks

	Short description
Mm9::chr10:119129106..119129125,+	p@chr10:119129106..119129125 +
Mm9::chr10:119129451..119129463,+	p@chr10:119129451..119129463 +
Mm9::chr10:36226819..36226830,+	p6@Hs3st5
Mm9::chr1:89079885..89079891,+	p1@Prss56
Mm9::chr2:105523125..105523134,+	p10@Pax6

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:0021902	commitment of a neuronal cell to a specific type of neuron in the forebrain	0.0081630416917767
GO:0021877	forebrain neuron fate commitment	0.0081630416917767
GO:0009950	dorsal/ventral axis specification	0.0122428853841288
GO:0021798	forebrain dorsal/ventral pattern formation	0.0122428853841288
GO:0008467	heparin-glucosamine 3-O-sulfotransferase activity	0.0122428853841288
GO:0022612	gland morphogenesis	0.0122428853841288
GO:0021871	forebrain regionalization	0.0122428853841288
GO:0007435	salivary gland morphogenesis	0.0122428853841288
GO:0021879	forebrain neuron differentiation	0.0126959777294741
GO:0021872	generation of neurons in the forebrain	0.0130583621575619
GO:0007431	salivary gland development	0.0154123204435505
GO:0021543	pallium development	0.0154123204435505
GO:0035272	exocrine system development	0.0154123204435505
GO:0042462	eye photoreceptor cell development	0.0154123204435505
GO:0045665	negative regulation of neuron differentiation	0.0154123204435505
GO:0001754	eye photoreceptor cell differentiation	0.0154123204435505
GO:0009798	axis specification	0.0154123204435505
GO:0042461	photoreceptor cell development	0.0154123204435505
GO:0021983	pituitary gland development	0.0154596129039684
GO:0021536	diencephalon development	0.0155754504481163
GO:0048663	neuron fate commitment	0.0155754504481163
GO:0046530	photoreceptor cell differentiation	0.0155754504481163
GO:0021537	telencephalon development	0.0163157968418642
GO:0001709	cell fate determination	0.0163157968418642
GO:0045664	regulation of neuron differentiation	0.017619611528558
GO:0009953	dorsal/ventral pattern formation	0.0253030419031981
GO:0048592	eye morphogenesis	0.0253030419031981
GO:0008146	sulfotransferase activity	0.0253030419031981
GO:0050767	regulation of neurogenesis	0.0253030419031981
GO:0035270	endocrine system development	0.0260881008947712
GO:0016782	transferase activity, transferring sulfur-containing groups	0.0264928204051225
GO:0030334	regulation of cell migration	0.0264928204051225
GO:0001764	neuron migration	0.0271698872877182
GO:0051270	regulation of cell motility	0.0282855429741964
GO:0040012	regulation of locomotion	0.0293370380011564
GO:0048732	gland development	0.0330263261225084
GO:0043010	camera-type eye development	0.0330263261225084
GO:0007411	axon guidance	0.0338685444371027
GO:0045596	negative regulation of cell differentiation	0.0355006099299734
GO:0009952	anterior/posterior pattern formation	0.0382685514432561
GO:0030900	forebrain development	0.0384800415206376
GO:0045165	cell fate commitment	0.0384800415206376
GO:0001654	eye development	0.0384800415206376
GO:0051093	negative regulation of developmental process	0.0384800415206376
GO:0008285	negative regulation of cell proliferation	0.0426734051288919

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)	8.80e-11	23
neuroblast (sensu Vertebrata)	8.80e-11	23
neuron	2.38e-08	33
neuronal stem cell	2.38e-08	33
neuroblast	2.38e-08	33
electrically signaling cell	2.38e-08	33

Uber Anatomy

Ontology term	p-value	n
neurectoderm	1.13e-28	64
neural plate	1.13e-28	64
presumptive neural plate	1.13e-28	64
pre-chordal neural plate	6.49e-25	49
ecto-epithelium	1.63e-23	73
ectoderm-derived structure	1.57e-22	95
ectoderm	1.57e-22	95
presumptive ectoderm	1.57e-22	95
neural tube	2.60e-18	52
neural rod	2.60e-18	52
future spinal cord	2.60e-18	52
neural keel	2.60e-18	52
nervous system	1.17e-17	75
central nervous system	2.85e-17	73
regional part of nervous system	5.01e-16	54
structure with developmental contribution from neural crest	5.26e-16	92
anterior neural tube	1.59e-14	40
brain	6.18e-14	47
future brain	6.18e-14	47
regional part of forebrain	7.28e-14	39
forebrain	7.28e-14	39
future forebrain	7.28e-14	39
gray matter	1.64e-13	34
eye	1.87e-13	9
camera-type eye	1.87e-13	9
simple eye	1.87e-13	9
immature eye	1.87e-13	9
ocular region	1.87e-13	9
visual system	1.87e-13	9
face	1.87e-13	9
optic cup	1.87e-13	9
optic vesicle	1.87e-13	9
eye primordium	1.87e-13	9
regional part of brain	6.77e-13	46
subdivision of head	1.57e-10	11
sense organ	1.93e-09	12
sensory system	1.93e-09	12
entire sense organ system	1.93e-09	12
brain grey matter	6.04e-09	29
regional part of telencephalon	6.04e-09	29
telencephalon	6.04e-09	29
head	1.60e-08	13
ectodermal placode	1.60e-08	13
spinal cord	5.58e-08	6
dorsal region element	5.58e-08	6
dorsum	5.58e-08	6
regional part of spinal cord	3.38e-07	5
gray matter of spinal cord	3.38e-07	5

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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