MCL coexpression mm9:2739

Phase1 CAGE Peaks

	Short description
Mm9::chr11:94335638..94335661,-	p6@Cacna1g
Mm9::chr11:94335672..94335699,-	p1@Cacna1g
Mm9::chr16:91729681..91729719,+	p4@Itsn1

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:0005891	voltage-gated calcium channel complex	0.0488632521975829
GO:0005509	calcium ion binding	0.0488632521975829
GO:0005245	voltage-gated calcium channel activity	0.0488632521975829
GO:0030027	lamellipodium	0.0488632521975829
GO:0019717	synaptosome	0.0488632521975829
GO:0005089	Rho guanyl-nucleotide exchange factor activity	0.0488632521975829
GO:0035023	regulation of Rho protein signal transduction	0.0488632521975829
GO:0044459	plasma membrane part	0.0488632521975829
GO:0005088	Ras guanyl-nucleotide exchange factor activity	0.0488632521975829
GO:0005262	calcium channel activity	0.0488632521975829
GO:0031252	leading edge	0.0488632521975829
GO:0007266	Rho protein signal transduction	0.0488632521975829
GO:0005886	plasma membrane	0.0488632521975829
GO:0046578	regulation of Ras protein signal transduction	0.0488632521975829
GO:0006816	calcium ion transport	0.0488632521975829
GO:0022843	voltage-gated cation channel activity	0.0488632521975829
GO:0005085	guanyl-nucleotide exchange factor activity	0.0488632521975829
GO:0051056	regulation of small GTPase mediated signal transduction	0.0488632521975829
GO:0015674	di-, tri-valent inorganic cation transport	0.0488632521975829
GO:0006810	transport	0.0488632521975829
GO:0051234	establishment of localization	0.0488632521975829
GO:0007265	Ras protein signal transduction	0.0488632521975829
GO:0005083	small GTPase regulator activity	0.0488632521975829
GO:0022832	voltage-gated channel activity	0.0488632521975829
GO:0005244	voltage-gated ion channel activity	0.0488632521975829
GO:0010324	membrane invagination	0.0488632521975829
GO:0006897	endocytosis	0.0488632521975829

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
CNS neuron (sensu Vertebrata)	7.29e-11	23
neuroblast (sensu Vertebrata)	7.29e-11	23
neuron	3.19e-08	33
neuronal stem cell	3.19e-08	33
neuroblast	3.19e-08	33
electrically signaling cell	3.19e-08	33

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	8.13e-21	54
neurectoderm	1.36e-20	64
neural plate	1.36e-20	64
presumptive neural plate	1.36e-20	64
ecto-epithelium	2.38e-19	73
central nervous system	2.47e-19	73
structure with developmental contribution from neural crest	3.09e-19	92
neural tube	3.69e-19	52
neural rod	3.69e-19	52
future spinal cord	3.69e-19	52
neural keel	3.69e-19	52
ectoderm-derived structure	1.09e-18	95
ectoderm	1.09e-18	95
presumptive ectoderm	1.09e-18	95
nervous system	6.01e-18	75
brain	2.17e-16	47
future brain	2.17e-16	47
pre-chordal neural plate	5.70e-16	49
regional part of brain	8.73e-16	46
gray matter	5.98e-15	34
anterior neural tube	1.26e-13	40
regional part of forebrain	4.71e-13	39
forebrain	4.71e-13	39
future forebrain	4.71e-13	39
brain grey matter	3.63e-12	29
regional part of telencephalon	3.63e-12	29
telencephalon	3.63e-12	29
tube	8.24e-10	114
multi-cellular organism	1.32e-09	333
anatomical conduit	4.74e-09	122
cerebral cortex	4.53e-08	21
cerebral hemisphere	4.53e-08	21
pallium	4.53e-08	21
embryo	2.00e-07	320
occipital lobe	2.57e-07	10
visual cortex	2.57e-07	10
neocortex	2.57e-07	10
regional part of cerebral cortex	3.03e-07	17

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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