MCL coexpression mm9:2864

Phase1 CAGE Peaks

	Short description
Mm9::chr13:59871112..59871187,-	p1@Isca1
Mm9::chr7:72789770..72789797,+	p1@Tarsl2
Mm9::chr7:72789804..72789818,+	p2@Tarsl2

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:0004829	threonine-tRNA ligase activity	0.00903911466031917
GO:0006435	threonyl-tRNA aminoacylation	0.00903911466031917
GO:0051536	iron-sulfur cluster binding	0.0294905635102609
GO:0051540	metal cluster binding	0.0294905635102609
GO:0043038	amino acid activation	0.0294905635102609
GO:0043039	tRNA aminoacylation	0.0294905635102609
GO:0006418	tRNA aminoacylation for protein translation	0.0294905635102609
GO:0016876	ligase activity, forming aminoacyl-tRNA and related compounds	0.0294905635102609
GO:0016875	ligase activity, forming carbon-oxygen bonds	0.0294905635102609
GO:0004812	aminoacyl-tRNA ligase activity	0.0294905635102609

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
structure with developmental contribution from neural crest	2.99e-11	92
anatomical conduit	9.46e-11	122
tube	2.15e-10	114
gray matter	1.96e-08	34
regional part of nervous system	3.92e-08	54
occipital lobe	8.61e-08	10
visual cortex	8.61e-08	10
neocortex	8.61e-08	10
neural tube	2.52e-07	52
neural rod	2.52e-07	52
future spinal cord	2.52e-07	52
neural keel	2.52e-07	52
brain grey matter	2.79e-07	29
regional part of telencephalon	2.79e-07	29
telencephalon	2.79e-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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