MCL coexpression mm9:1983

Phase1 CAGE Peaks

	Short description
Mm9::chr11:68904332..68904343,+	p@chr11:68904332..68904343 +
Mm9::chr7:68675006..68675020,-	p@chr7:68675006..68675020 -
Mm9::chr7:85337416..85337436,-	p@chr7:85337416..85337436 -
Mm9::chr9:3904162..3904180,+	p@chr9:3904162..3904180 +

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:0048691	positive regulation of axon extension involved in regeneration	0.00260231194872076
GO:0048690	regulation of axon extension involved in regeneration	0.00260231194872076
GO:0048677	axon extension involved in regeneration	0.00260231194872076
GO:0048682	sprouting of injured axon	0.00260231194872076
GO:0031103	axon regeneration	0.00433718658120126
GO:0031102	neurite regeneration	0.00433718658120126
GO:0048678	response to axon injury	0.00446110619780701
GO:0031099	regeneration	0.00636120698576186
GO:0042246	tissue regeneration	0.00636120698576186
GO:0048675	axon extension	0.0119706349641155
GO:0042490	mechanoreceptor differentiation	0.0156138716923245
GO:0048589	developmental growth	0.0208184955897661
GO:0004714	transmembrane receptor protein tyrosine kinase activity	0.0248220524339519
GO:0019199	transmembrane receptor protein kinase activity	0.0271383960366593
GO:0042060	wound healing	0.027411019193192
GO:0007409	axonogenesis	0.0424176847641484
GO:0004713	protein-tyrosine kinase activity	0.0424176847641484
GO:0048667	neuron morphogenesis during differentiation	0.0424176847641484
GO:0048812	neurite morphogenesis	0.0424176847641484
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	0.0424176847641484
GO:0000904	cellular morphogenesis during differentiation	0.0458502581441276
GO:0031175	neurite development	0.0461318936364135
GO:0048666	neuron development	0.0493307830279239
GO:0007167	enzyme linked receptor protein signaling pathway	0.0499643894154386
GO:0032990	cell part morphogenesis	0.0499643894154386
GO:0030030	cell projection organization and biogenesis	0.0499643894154386
GO:0048858	cell projection morphogenesis	0.0499643894154386
GO:0030182	neuron differentiation	0.0499643894154386
GO:0009888	tissue development	0.0499643894154386
GO:0009611	response to wounding	0.0499643894154386

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)	7.85e-11	23
neuroblast (sensu Vertebrata)	7.85e-11	23
neuron	1.84e-07	33
neuronal stem cell	1.84e-07	33
neuroblast	1.84e-07	33
electrically signaling cell	1.84e-07	33
electrically responsive cell	3.53e-07	39
electrically active cell	3.53e-07	39

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	5.90e-24	54
neural tube	5.41e-22	52
neural rod	5.41e-22	52
future spinal cord	5.41e-22	52
neural keel	5.41e-22	52
gray matter	4.74e-20	34
neurectoderm	3.41e-19	64
neural plate	3.41e-19	64
presumptive neural plate	3.41e-19	64
central nervous system	1.35e-18	73
brain	1.74e-18	47
future brain	1.74e-18	47
nervous system	3.50e-18	75
regional part of brain	9.68e-18	46
ecto-epithelium	4.50e-17	73
anterior neural tube	1.57e-16	40
brain grey matter	1.79e-16	29
regional part of telencephalon	1.79e-16	29
telencephalon	1.79e-16	29
regional part of forebrain	8.28e-16	39
forebrain	8.28e-16	39
future forebrain	8.28e-16	39
structure with developmental contribution from neural crest	9.08e-15	92
pre-chordal neural plate	1.39e-14	49
ectoderm-derived structure	2.02e-14	95
ectoderm	2.02e-14	95
presumptive ectoderm	2.02e-14	95
cerebral cortex	4.30e-11	21
cerebral hemisphere	4.30e-11	21
pallium	4.30e-11	21
occipital lobe	2.85e-10	10
visual cortex	2.85e-10	10
neocortex	2.85e-10	10
regional part of cerebral cortex	6.56e-09	17
tube	3.31e-08	114
anatomical conduit	1.21e-07	122

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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