MCL coexpression mm9:2021

Phase1 CAGE Peaks

	Short description
Mm9::chr12:106270848..106270915,+	p1@Glrx5
Mm9::chr13:41111644..41111678,+	p1@Tmem14c
Mm9::chr13:41111692..41111704,+	p2@Tmem14c
Mm9::chr3:121948543..121948640,+	p1@Gclm

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:0035229	positive regulation of glutamate-cysteine ligase activity	0.00350608083794198
GO:0035226	glutamate-cysteine ligase catalytic subunit binding	0.00350608083794198
GO:0035227	regulation of glutamate-cysteine ligase activity	0.00350608083794198
GO:0051351	positive regulation of ligase activity	0.00350608083794198
GO:0051340	regulation of ligase activity	0.00350608083794198
GO:0051900	regulation of mitochondrial depolarization	0.00350608083794198
GO:0017109	glutamate-cysteine ligase complex	0.00350608083794198
GO:0051882	mitochondrial depolarization	0.00350608083794198
GO:0004357	glutamate-cysteine ligase activity	0.00350608083794198
GO:0019725	cellular homeostasis	0.00380120485661121
GO:0051881	regulation of mitochondrial membrane potential	0.00430268163725471
GO:0006534	cysteine metabolic process	0.00657282106793939
GO:0042592	homeostatic process	0.00676024552442009
GO:0006750	glutathione biosynthetic process	0.00676024552442009
GO:0015035	protein disulfide oxidoreductase activity	0.00736075289404753
GO:0015036	disulfide oxidoreductase activity	0.0128113835947072
GO:0000096	sulfur amino acid metabolic process	0.0141049899874779
GO:0009069	serine family amino acid metabolic process	0.0141049899874779
GO:0051899	membrane depolarization	0.0141049899874779
GO:0006749	glutathione metabolic process	0.0149527722450228
GO:0065008	regulation of biological quality	0.0149527722450228
GO:0044444	cytoplasmic part	0.0198637834279382
GO:0044272	sulfur compound biosynthetic process	0.0198637834279382
GO:0016491	oxidoreductase activity	0.0200451266851218
GO:0045454	cell redox homeostasis	0.0252967847412073
GO:0042391	regulation of membrane potential	0.0252967847412073
GO:0005739	mitochondrion	0.0252967847412073
GO:0006979	response to oxidative stress	0.0252967847412073
GO:0046982	protein heterodimerization activity	0.0314545575747391
GO:0006790	sulfur metabolic process	0.0314545575747391
GO:0009108	coenzyme biosynthetic process	0.0420554223847001
GO:0051188	cofactor biosynthetic process	0.0470887349534143

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
digestive tract diverticulum	2.00e-12	23
sac	2.00e-12	23
liver	2.75e-12	22
epithelial sac	2.75e-12	22
digestive gland	2.75e-12	22
epithelium of foregut-midgut junction	2.75e-12	22
anatomical boundary	2.75e-12	22
hepatobiliary system	2.75e-12	22
foregut-midgut junction	2.75e-12	22
hepatic diverticulum	2.75e-12	22
liver primordium	2.75e-12	22
septum transversum	2.75e-12	22
liver bud	2.75e-12	22
abdomen element	3.66e-12	49
abdominal segment element	3.66e-12	49
abdominal segment of trunk	3.66e-12	49
abdomen	3.66e-12	49
exocrine gland	3.57e-10	25
exocrine system	3.57e-10	25
epithelial tube	2.31e-09	47
organ component layer	3.84e-09	24
mesenchyme	1.91e-08	61
entire embryonic mesenchyme	1.91e-08	61
trunk mesenchyme	5.96e-08	45
subdivision of trunk	2.32e-07	66
gastrointestinal system	4.93e-07	47

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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