MCL coexpression mm9:2225

Phase1 CAGE Peaks

	Short description
Mm9::chr17:80976750..80976779,-	p@chr17:80976750..80976779 -
Mm9::chr2:125684899..125684961,+	p3@Galk2
Mm9::chr4:129296296..129296307,-	p2@Iqcc
Mm9::chr5:23889426..23889439,-	p1@ENSMUST00000156403

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:0004335	galactokinase activity	0.00339670191201446
GO:0006012	galactose metabolic process	0.00339670191201446
GO:0046835	carbohydrate phosphorylation	0.00339670191201446
GO:0019200	carbohydrate kinase activity	0.0123130444310524
GO:0019318	hexose metabolic process	0.0379298380174948
GO:0005996	monosaccharide metabolic process	0.0379298380174948

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
neural tube	3.66e-22	52
neural rod	3.66e-22	52
future spinal cord	3.66e-22	52
neural keel	3.66e-22	52
regional part of nervous system	6.11e-22	54
central nervous system	6.42e-22	73
neurectoderm	5.44e-21	64
neural plate	5.44e-21	64
presumptive neural plate	5.44e-21	64
brain	1.11e-20	47
future brain	1.11e-20	47
nervous system	3.87e-20	75
regional part of brain	4.39e-20	46
anterior neural tube	8.93e-19	40
ecto-epithelium	1.34e-18	73
pre-chordal neural plate	1.60e-18	49
regional part of forebrain	3.74e-18	39
forebrain	3.74e-18	39
future forebrain	3.74e-18	39
ectoderm-derived structure	1.66e-17	95
ectoderm	1.66e-17	95
presumptive ectoderm	1.66e-17	95
gray matter	7.16e-15	34
structure with developmental contribution from neural crest	6.21e-14	92
brain grey matter	1.36e-13	29
regional part of telencephalon	1.36e-13	29
telencephalon	1.36e-13	29
tube	2.13e-11	114
anatomical conduit	5.45e-11	122
cerebral cortex	1.09e-09	21
cerebral hemisphere	1.09e-09	21
pallium	1.09e-09	21
regional part of cerebral cortex	5.15e-09	17
occipital lobe	2.86e-07	10
visual cortex	2.86e-07	10
neocortex	2.86e-07	10

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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