MCL coexpression mm9:1006

Phase1 CAGE Peaks

	Short description
Mm9::chr10:11063185..11063304,+	p1@Epm2a
Mm9::chr16:7341612..7341617,+	p@chr16:7341612..7341617 +
Mm9::chr2:119420024..119420068,+	p1@1700020I14Rik
Mm9::chr2:180891698..180891722,-	p2@Eef1a2
Mm9::chr2:180891726..180891747,-	p3@Eef1a2
Mm9::chr2:31951038..31951115,+	p1@Ppapdc3
Mm9::chr8:124102655..124102717,-	p1@Fbxo31

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:0051440	regulation of ubiquitin-protein ligase activity during meiotic cell cycle	0.00497765533650046
GO:0051352	negative regulation of ligase activity	0.00497765533650046
GO:0051444	negative regulation of ubiquitin-protein ligase activity	0.00497765533650046
GO:0007056	spindle assembly involved in female meiosis	0.00497765533650046
GO:0051442	negative regulation of ubiquitin-protein ligase activity during meiotic cell cycle	0.00497765533650046
GO:0007057	spindle assembly involved in female meiosis I	0.00497765533650046
GO:0051438	regulation of ubiquitin-protein ligase activity	0.00497765533650046
GO:0051340	regulation of ligase activity	0.00871018095320527
GO:0007144	female meiosis I	0.0104513581438009
GO:0046785	microtubule polymerization	0.0104513581438009
GO:0000089	mitotic metaphase	0.0116116657850133
GO:0040020	regulation of meiosis	0.0116116657850133
GO:0005853	eukaryotic translation elongation factor 1 complex	0.0124400480142583
GO:0001556	oocyte maturation	0.0124400480142583
GO:0051225	spindle assembly	0.0130609769002419
GO:0051323	metaphase	0.0130609769002419
GO:0009994	oocyte differentiation	0.0146625460840285
GO:0007143	female meiosis	0.0146625460840285
GO:0048599	oocyte development	0.0146625460840285
GO:0007128	meiotic prophase I	0.0149231506590364
GO:0051324	prophase	0.0149231506590364
GO:0016050	vesicle organization and biogenesis	0.0189884181220496
GO:0031109	microtubule polymerization or depolymerization	0.0203037202757398
GO:0007051	spindle organization and biogenesis	0.0203037202757398
GO:0007346	regulation of progression through mitotic cell cycle	0.0278313726471385
GO:0048477	oogenesis	0.0280966723473018
GO:0016787	hydrolase activity	0.0297494731467228
GO:0007281	germ cell development	0.0335274459548965
GO:0007127	meiosis I	0.0335675056197165
GO:0006073	glucan metabolic process	0.0336715916646123
GO:0005977	glycogen metabolic process	0.0336715916646123
GO:0003746	translation elongation factor activity	0.0336715916646123
GO:0006112	energy reserve metabolic process	0.0357361588570191
GO:0008138	protein tyrosine/serine/threonine phosphatase activity	0.0357361588570191
GO:0007292	female gamete generation	0.0357361588570191
GO:0051258	protein polymerization	0.0376294963705317
GO:0006414	translational elongation	0.0401854718817365
GO:0005976	polysaccharide metabolic process	0.0401854718817365
GO:0044264	cellular polysaccharide metabolic process	0.0401854718817365
GO:0043086	negative regulation of catalytic activity	0.0401854718817365
GO:0044267	cellular protein metabolic process	0.0401854718817365
GO:0044260	cellular macromolecule metabolic process	0.0410341441179329
GO:0019538	protein metabolic process	0.0431625958879685
GO:0032502	developmental process	0.0463267450141775
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.04866852896075
GO:0043284	biopolymer biosynthetic process	0.04866852896075
GO:0015980	energy derivation by oxidation of organic compounds	0.04866852896075

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)	2.33e-09	23
neuroblast (sensu Vertebrata)	2.33e-09	23

Uber Anatomy

Ontology term	p-value	n
structure with developmental contribution from neural crest	2.61e-26	92
ectoderm-derived structure	3.93e-21	95
ectoderm	3.93e-21	95
presumptive ectoderm	3.93e-21	95
regional part of nervous system	8.65e-21	54
central nervous system	6.33e-20	73
neurectoderm	9.60e-20	64
neural plate	9.60e-20	64
presumptive neural plate	9.60e-20	64
nervous system	1.58e-19	75
ecto-epithelium	1.90e-19	73
neural tube	2.49e-19	52
neural rod	2.49e-19	52
future spinal cord	2.49e-19	52
neural keel	2.49e-19	52
brain	1.09e-16	47
future brain	1.09e-16	47
regional part of brain	4.68e-16	46
gray matter	6.04e-15	34
pre-chordal neural plate	1.17e-14	49
anterior neural tube	1.10e-13	40
anatomical conduit	2.40e-13	122
tube	3.65e-13	114
regional part of forebrain	4.69e-13	39
forebrain	4.69e-13	39
future forebrain	4.69e-13	39
brain grey matter	2.40e-12	29
regional part of telencephalon	2.40e-12	29
telencephalon	2.40e-12	29
cerebral cortex	1.76e-08	21
cerebral hemisphere	1.76e-08	21
pallium	1.76e-08	21
regional part of cerebral cortex	4.35e-08	17
occipital lobe	2.45e-07	10
visual cortex	2.45e-07	10
neocortex	2.45e-07	10
multi-cellular organism	5.99e-07	333

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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