MCL coexpression mm9:1167

Phase1 CAGE Peaks

	Short description
Mm9::chr18:60783855..60783901,-	p1@Synpo
Mm9::chr18:60783958..60784005,-	p3@Synpo
Mm9::chr5:15440374..15440442,+	p2@Cacna2d1
Mm9::chr5:15440524..15440537,+	p4@Cacna2d1
Mm9::chr5:15440580..15440605,+	p3@Cacna2d1
Mm9::chr5:15440731..15440744,+	p6@Cacna2d1
Mm9::chr5:15440771..15440780,+	p11@Cacna2d1

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:0051924	regulation of calcium ion transport	0.0207684070054428
GO:0030315	T-tubule	0.0207684070054428
GO:0030865	cortical cytoskeleton organization and biogenesis	0.0207684070054428
GO:0043197	dendritic spine	0.0207684070054428
GO:0043269	regulation of ion transport	0.0207684070054428
GO:0016529	sarcoplasmic reticulum	0.0302739810623657
GO:0042383	sarcolemma	0.0302739810623657
GO:0016528	sarcoplasm	0.0302739810623657
GO:0030425	dendrite	0.0461064870399759
GO:0044459	plasma membrane part	0.0465217281282534
GO:0005262	calcium channel activity	0.0465217281282534
GO:0044463	cell projection part	0.0465217281282534
GO:0005923	tight junction	0.0465217281282534
GO:0051049	regulation of transport	0.0485719141194373
GO:0043296	apical junction complex	0.0485719141194373
GO:0016327	apicolateral plasma membrane	0.0485719141194373
GO:0005886	plasma membrane	0.0493937890147435
GO:0006816	calcium ion transport	0.0493937890147435
GO:0045211	postsynaptic membrane	0.0495118245516327
GO:0043005	neuron projection	0.0497117321580318
GO:0044456	synapse part	0.0497117321580318

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	8.96e-19	92
ectoderm-derived structure	3.80e-13	95
ectoderm	3.80e-13	95
presumptive ectoderm	3.80e-13	95
central nervous system	4.85e-13	73
nervous system	5.10e-13	75
regional part of nervous system	3.19e-12	54
neurectoderm	6.29e-12	64
neural plate	6.29e-12	64
presumptive neural plate	6.29e-12	64
ecto-epithelium	1.68e-11	73
neural tube	1.94e-11	52
neural rod	1.94e-11	52
future spinal cord	1.94e-11	52
neural keel	1.94e-11	52
brain	2.26e-11	47
future brain	2.26e-11	47
regional part of brain	8.99e-11	46
pre-chordal neural plate	1.37e-09	49
anterior neural tube	1.38e-09	40
anatomical conduit	2.28e-09	122
tube	3.58e-09	114
regional part of forebrain	4.41e-09	39
forebrain	4.41e-09	39
future forebrain	4.41e-09	39
multi-cellular organism	4.29e-08	333
occipital lobe	7.40e-08	10
visual cortex	7.40e-08	10
neocortex	7.40e-08	10
gray matter	4.11e-07	34
brain grey matter	6.64e-07	29
regional part of telencephalon	6.64e-07	29
telencephalon	6.64e-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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