MCL coexpression mm9:1750

Phase1 CAGE Peaks

	Short description
Mm9::chr1:193141969..193142005,-	p1@Nenf
Mm9::chr2:93662694..93662738,-	p1@Ext2
Mm9::chr5:137463258..137463284,+	p2@Plod3
Mm9::chr6:128305815..128305842,-	p2@Tulp3
Mm9::chr6:128305844..128305874,-	p1@Tulp3

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:0050509	N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity	0.0161051764061131
GO:0050508	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity	0.0161051764061131
GO:0008475	procollagen-lysine 5-dioxygenase activity	0.0161051764061131
GO:0015012	heparan sulfate proteoglycan biosynthetic process	0.0225423057380206
GO:0030201	heparan sulfate proteoglycan metabolic process	0.0225423057380206
GO:0043410	positive regulation of MAPKKK cascade	0.0241498236359184
GO:0030166	proteoglycan biosynthetic process	0.0268022710415322
GO:0043408	regulation of MAPKKK cascade	0.0268022710415322
GO:0031418	L-ascorbic acid binding	0.0268022710415322
GO:0006029	proteoglycan metabolic process	0.0268022710415322
GO:0015020	glucuronosyltransferase activity	0.0268022710415322
GO:0005783	endoplasmic reticulum	0.0268022710415322
GO:0016706	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors	0.0268022710415322
GO:0001707	mesoderm formation	0.0268022710415322
GO:0048332	mesoderm morphogenesis	0.0268022710415322
GO:0001704	formation of primary germ layer	0.0268022710415322
GO:0044272	sulfur compound biosynthetic process	0.0268022710415322
GO:0008375	acetylglucosaminyltransferase activity	0.0268022710415322
GO:0007498	mesoderm development	0.0414298065478486
GO:0051213	dioxygenase activity	0.0414706873941803
GO:0016702	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	0.0414706873941803
GO:0006790	sulfur metabolic process	0.0414706873941803
GO:0016701	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen	0.0414706873941803
GO:0007369	gastrulation	0.0414706873941803
GO:0009967	positive regulation of signal transduction	0.0417313724965586
GO:0048729	tissue morphogenesis	0.0462742073363588
GO:0016051	carbohydrate biosynthetic process	0.0469265999411267
GO:0008194	UDP-glycosyltransferase activity	0.0492412841194071

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
non-terminally differentiated cell	1.15e-08	49
migratory neural crest cell	1.93e-07	10
neuron associated cell	1.93e-07	10
glial cell (sensu Vertebrata)	1.93e-07	10
neuron associated cell (sensu Vertebrata)	1.93e-07	10
glial cell	1.93e-07	10
glioblast	1.93e-07	10
glioblast (sensu Vertebrata)	1.93e-07	10
oligodendrocyte precursor cell	9.18e-07	8

Uber Anatomy

Ontology term	p-value	n
ectoderm-derived structure	7.73e-07	95
ectoderm	7.73e-07	95
presumptive ectoderm	7.73e-07	95

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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