MCL coexpression mm9:1188

Phase1 CAGE Peaks

	Short description
Mm9::chr2:33496386..33496410,-	p1@Lmx1b
Mm9::chr2:33496574..33496588,+	p4@ENSMUST00000152118 p4@uc008jhz.1
Mm9::chr2:33496584..33496601,-	p@chr2:33496584..33496601 -
Mm9::chr2:33496770..33496783,+	p1@ENSMUST00000152118 p1@uc008jhz.1
Mm9::chr2:33496787..33496842,+	p1@ENSMUST00000147294 p1@uc008jia.1
Mm9::chr2:33496847..33496857,+	p3@ENSMUST00000147294 p3@uc008jia.1
Mm9::chr2:33498116..33498124,+	p@chr2:33498116..33498124 +

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:0030199	collagen fibril organization	0.0296305349173371
GO:0021954	central nervous system neuron development	0.0296305349173371
GO:0021953	central nervous system neuron differentiation	0.0296305349173371
GO:0009953	dorsal/ventral pattern formation	0.0296305349173371
GO:0001764	neuron migration	0.0296305349173371
GO:0030198	extracellular matrix organization and biogenesis	0.0296305349173371
GO:0030326	embryonic limb morphogenesis	0.0296305349173371
GO:0035113	embryonic appendage morphogenesis	0.0296305349173371
GO:0043010	camera-type eye development	0.0296305349173371
GO:0035107	appendage morphogenesis	0.0296305349173371
GO:0035108	limb morphogenesis	0.0296305349173371
GO:0048736	appendage development	0.0296305349173371
GO:0060173	limb development	0.0296305349173371
GO:0043062	extracellular structure organization and biogenesis	0.0338063149436622
GO:0001654	eye development	0.0338063149436622
GO:0003002	regionalization	0.0447974305593601

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)	1.45e-10	23
neuroblast (sensu Vertebrata)	1.45e-10	23

Uber Anatomy

Ontology term	p-value	n
eye	1.74e-10	9
camera-type eye	1.74e-10	9
simple eye	1.74e-10	9
immature eye	1.74e-10	9
ocular region	1.74e-10	9
visual system	1.74e-10	9
face	1.74e-10	9
optic cup	1.74e-10	9
optic vesicle	1.74e-10	9
eye primordium	1.74e-10	9
forelimb	5.07e-10	7
pectoral appendage	5.07e-10	7
pectoral appendage bud	5.07e-10	7
forelimb bud	5.07e-10	7
forelimb/pectoral fin field	5.07e-10	7
pectoral complex	1.58e-08	8
spinal cord	3.08e-08	6
dorsal region element	3.08e-08	6
dorsum	3.08e-08	6
subdivision of head	3.95e-08	11
neurectoderm	1.95e-07	64
neural plate	1.95e-07	64
presumptive neural plate	1.95e-07	64
regional part of spinal cord	2.91e-07	5
gray matter of spinal cord	2.91e-07	5
sense organ	2.97e-07	12
sensory system	2.97e-07	12
entire sense organ system	2.97e-07	12

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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