MCL coexpression mm9:3507

Phase1 CAGE Peaks

	Short description
Mm9::chr5:137463371..137463439,-	p1@Znhit1
Mm9::chr5:137974440..137974518,-	p1@Epo p1@Gnb2
Mm9::chr5:137974525..137974539,-	p3@Gnb2

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:0042744	hydrogen peroxide catabolic process	0.0279268370927454
GO:0042743	hydrogen peroxide metabolic process	0.0279268370927454
GO:0042542	response to hydrogen peroxide	0.0279268370927454
GO:0000302	response to reactive oxygen species	0.0335011872033904
GO:0006800	oxygen and reactive oxygen species metabolic process	0.0345159216351491
GO:0004601	peroxidase activity	0.0345159216351491
GO:0016684	oxidoreductase activity, acting on peroxide as acceptor	0.0345159216351491
GO:0005834	heterotrimeric G-protein complex	0.0345159216351491
GO:0006979	response to oxidative stress	0.0417985017757417
GO:0019897	extrinsic to plasma membrane	0.0417985017757417

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
embryonic cell	5.58e-13	70
neural cell	9.30e-12	43
ectodermal cell	9.32e-12	44
neurectodermal cell	9.32e-12	44
non-terminally differentiated cell	2.51e-11	49
CNS neuron (sensu Vertebrata)	2.45e-10	23
neuroblast (sensu Vertebrata)	2.45e-10	23
neuron	7.18e-08	33
neuronal stem cell	7.18e-08	33
neuroblast	7.18e-08	33
electrically signaling cell	7.18e-08	33
electrically responsive cell	1.48e-07	39
electrically active cell	1.48e-07	39

Uber Anatomy

Ontology term	p-value	n
nervous system	3.18e-13	75
central nervous system	4.21e-13	73
gray matter	9.37e-13	34
regional part of nervous system	1.33e-11	54
regional part of forebrain	8.18e-11	39
forebrain	8.18e-11	39
future forebrain	8.18e-11	39
neural tube	1.75e-10	52
neural rod	1.75e-10	52
future spinal cord	1.75e-10	52
neural keel	1.75e-10	52
brain grey matter	1.80e-10	29
regional part of telencephalon	1.80e-10	29
telencephalon	1.80e-10	29
anterior neural tube	3.53e-10	40
regional part of brain	7.92e-09	46
brain	9.98e-09	47
future brain	9.98e-09	47
ectoderm-derived structure	1.22e-08	95
ectoderm	1.22e-08	95
presumptive ectoderm	1.22e-08	95
cerebral cortex	4.19e-08	21
cerebral hemisphere	4.19e-08	21
pallium	4.19e-08	21
neurectoderm	4.08e-07	64
neural plate	4.08e-07	64
presumptive neural plate	4.08e-07	64
structure with developmental contribution from neural crest	9.33e-07	92

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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