MCL coexpression mm9:2912

Phase1 CAGE Peaks

	Short description
Mm9::chr14:51544691..51544702,+	p3@Apex1
Mm9::chr8:87493517..87493535,+	p2@LOC100504815 p4@Prdx2
Mm9::chr8:87493536..87493552,+	p1@Prdx2

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:0008379	thioredoxin peroxidase activity	0.00701235377937627
GO:0030503	regulation of cell redox homeostasis	0.00701235377937627
GO:0051920	peroxiredoxin activity	0.0122699382083509
GO:0003906	DNA-(apurinic or apyrimidinic site) lyase activity	0.0122699382083509
GO:0006950	response to stress	0.0208406163069042
GO:0006800	oxygen and reactive oxygen species metabolic process	0.0256901280940883
GO:0008430	selenium binding	0.0256901280940883
GO:0004601	peroxidase activity	0.0256901280940883
GO:0016684	oxidoreductase activity, acting on peroxide as acceptor	0.0256901280940883
GO:0045454	cell redox homeostasis	0.0286531090740304
GO:0006979	response to oxidative stress	0.0286531090740304
GO:0016835	carbon-oxygen lyase activity	0.0344235690782167
GO:0006916	anti-apoptosis	0.0419865234837695
GO:0004519	endonuclease activity	0.0424781986506297

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	7.85e-16	44
neurectodermal cell	7.85e-16	44
neural cell	3.23e-15	43
non-terminally differentiated cell	3.42e-14	49
neuron	1.24e-12	33
neuronal stem cell	1.24e-12	33
neuroblast	1.24e-12	33
electrically signaling cell	1.24e-12	33
electrically responsive cell	1.61e-11	39
electrically active cell	1.61e-11	39
CNS neuron (sensu Vertebrata)	2.63e-10	23
neuroblast (sensu Vertebrata)	2.63e-10	23
embryonic cell	4.34e-07	70

Uber Anatomy

Ontology term	p-value	n
structure with developmental contribution from neural crest	2.33e-14	92
central nervous system	2.30e-12	73
nervous system	2.89e-12	75
ectoderm-derived structure	1.70e-09	95
ectoderm	1.70e-09	95
presumptive ectoderm	1.70e-09	95
neurectoderm	1.95e-09	64
neural plate	1.95e-09	64
presumptive neural plate	1.95e-09	64
pre-chordal neural plate	5.20e-08	49
regional part of nervous system	1.96e-07	54
neural tube	2.16e-07	52
neural rod	2.16e-07	52
future spinal cord	2.16e-07	52
neural keel	2.16e-07	52
ecto-epithelium	3.21e-07	73
regional part of forebrain	5.72e-07	39
forebrain	5.72e-07	39
future forebrain	5.72e-07	39

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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