MCL coexpression mm9:910

Phase1 CAGE Peaks

	Short description
Mm9::chr11:6375884..6375920,-	p2@Purb
Mm9::chr11:74986055..74986071,+	p1@ENSMUST00000134252
Mm9::chr14:70480962..70480969,+	p@chr14:70480962..70480969 +
Mm9::chr15:101105031..101105041,+	p@chr15:101105031..101105041 +
Mm9::chr1:36996339..36996348,-	p5@Tmem131
Mm9::chr1:52289825..52289842,-	p6@Gls
Mm9::chr4:86503216..86503253,-	p2@Gm13654 p2@LOC639593 p2@Rps6
Mm9::chr5:150438847..150438866,-	p2@Hsph1

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:0006543	glutamine catabolic process	0.0188916839156807
GO:0004359	glutaminase activity	0.0188916839156807
GO:0002087	neurological control of breathing	0.0188916839156807
GO:0003016	respiratory system process	0.0188916839156807
GO:0005662	DNA replication factor A complex	0.0188916839156807
GO:0046332	SMAD binding	0.0188916839156807
GO:0030894	replisome	0.0188916839156807
GO:0009065	glutamine family amino acid catabolic process	0.0188916839156807
GO:0043601	nuclear replisome	0.0188916839156807
GO:0043596	nuclear replication fork	0.0188916839156807
GO:0006541	glutamine metabolic process	0.0257543293727709
GO:0003697	single-stranded DNA binding	0.0304989438990855
GO:0003690	double-stranded DNA binding	0.0304989438990855
GO:0005657	replication fork	0.0323609045376041
GO:0009064	glutamine family amino acid metabolic process	0.0353831001632472
GO:0003729	mRNA binding	0.0353831001632472
GO:0009063	amino acid catabolic process	0.047627045670694
GO:0043566	structure-specific DNA binding	0.047627045670694
GO:0016811	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	0.047627045670694

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
regional part of nervous system	1.80e-15	54
neural tube	2.82e-14	52
neural rod	2.82e-14	52
future spinal cord	2.82e-14	52
neural keel	2.82e-14	52
central nervous system	3.27e-14	73
nervous system	4.08e-14	75
brain	2.21e-12	47
future brain	2.21e-12	47
ectoderm-derived structure	5.15e-12	95
ectoderm	5.15e-12	95
presumptive ectoderm	5.15e-12	95
regional part of brain	8.45e-12	46
ecto-epithelium	1.43e-11	73
neurectoderm	2.80e-11	64
neural plate	2.80e-11	64
presumptive neural plate	2.80e-11	64
anterior neural tube	5.86e-11	40
regional part of forebrain	1.97e-10	39
forebrain	1.97e-10	39
future forebrain	1.97e-10	39
gray matter	4.32e-09	34
organ part	8.17e-09	99
pre-chordal neural plate	9.07e-09	49
occipital lobe	2.71e-08	10
visual cortex	2.71e-08	10
neocortex	2.71e-08	10
brain grey matter	2.74e-07	29
regional part of telencephalon	2.74e-07	29
telencephalon	2.74e-07	29

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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