MCL coexpression mm9:612

Phase1 CAGE Peaks

	Short description
Mm9::chr12:112909747..112909802,-	p@chr12:112909747..112909802 -
Mm9::chr12:81620208..81620217,+	p@chr12:81620208..81620217 +
Mm9::chr15:30387606..30387623,+	p@chr15:30387606..30387623 +
Mm9::chr5:138199481..138199491,+	p16@Tsc22d4
Mm9::chr5:143040448..143040453,-	p@chr5:143040448..143040453 -
Mm9::chr5:143084702..143084734,-	p1@Mmd2
Mm9::chr5:143084739..143084762,-	p2@Mmd2
Mm9::chr7:4071127..4071157,+	p2@Ttyh1
Mm9::chr7:4071158..4071198,+	p1@Ttyh1
Mm9::chr7:4071200..4071211,+	p3@Ttyh1
Mm9::chr8:97519491..97519521,+	p@chr8:97519491..97519521 +
Mm9::chr9:54509473..54509523,-	p1@Acsbg1

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:0032433	filopodium tip	0.014134662795157
GO:0031527	filopodium membrane	0.014134662795157
GO:0031957	very-long-chain-fatty-acid-CoA ligase activity	0.014134662795157
GO:0004111	creatine kinase activity	0.0423285488713615
GO:0000038	very-long-chain fatty acid metabolic process	0.0423285488713615
GO:0046847	filopodium formation	0.0423285488713615
GO:0030035	microspike biogenesis	0.0423285488713615
GO:0031253	cell projection membrane	0.0423285488713615
GO:0006970	response to osmotic stress	0.0423285488713615
GO:0004467	long-chain-fatty-acid-CoA ligase activity	0.0423285488713615
GO:0030175	filopodium	0.0423285488713615
GO:0015645	fatty-acid ligase activity	0.0423285488713615
GO:0001676	long-chain fatty acid metabolic process	0.0423285488713615
GO:0016775	phosphotransferase activity, nitrogenous group as acceptor	0.0423285488713615

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
ectodermal cell	1.89e-20	44
neurectodermal cell	1.89e-20	44
neural cell	5.99e-20	43
non-terminally differentiated cell	2.93e-15	49
neuron	3.94e-15	33
neuronal stem cell	3.94e-15	33
neuroblast	3.94e-15	33
electrically signaling cell	3.94e-15	33
CNS neuron (sensu Vertebrata)	7.48e-13	23
neuroblast (sensu Vertebrata)	7.48e-13	23
electrically responsive cell	9.81e-11	39
electrically active cell	9.81e-11	39
embryonic cell	5.92e-07	70

Uber Anatomy

Ontology term	p-value	n
nervous system	3.22e-37	75
central nervous system	3.60e-37	73
ectoderm-derived structure	9.25e-31	95
ectoderm	9.25e-31	95
presumptive ectoderm	9.25e-31	95
regional part of nervous system	3.30e-28	54
neurectoderm	7.28e-27	64
neural plate	7.28e-27	64
presumptive neural plate	7.28e-27	64
neural tube	1.08e-26	52
neural rod	1.08e-26	52
future spinal cord	1.08e-26	52
neural keel	1.08e-26	52
ecto-epithelium	8.49e-24	73
brain	3.96e-23	47
future brain	3.96e-23	47
regional part of brain	1.51e-22	46
gray matter	7.08e-20	34
anterior neural tube	7.39e-19	40
structure with developmental contribution from neural crest	1.56e-18	92
pre-chordal neural plate	2.23e-18	49
regional part of forebrain	3.17e-18	39
forebrain	3.17e-18	39
future forebrain	3.17e-18	39
brain grey matter	1.44e-16	29
regional part of telencephalon	1.44e-16	29
telencephalon	1.44e-16	29
cerebral cortex	3.27e-12	21
cerebral hemisphere	3.27e-12	21
pallium	3.27e-12	21
regional part of cerebral cortex	1.88e-10	17
posterior neural tube	2.17e-08	12
chordal neural plate	2.17e-08	12
multi-cellular organism	1.08e-07	333
occipital lobe	1.31e-07	10
visual cortex	1.31e-07	10
neocortex	1.31e-07	10

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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