MCL coexpression mm9:3011

Phase1 CAGE Peaks

	Short description
Mm9::chr15:81791248..81791276,-	p2@Pmm1
Mm9::chr15:81791281..81791302,-	p1@Pmm1
Mm9::chr7:35015332..35015343,-	p3@Gpi1

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:0004615	phosphomannomutase activity	0.00635494561255974
GO:0019307	mannose biosynthetic process	0.00635494561255974
GO:0017176	phosphatidylinositol N-acetylglucosaminyltransferase activity	0.00847279656663992
GO:0016868	intramolecular transferase activity, phosphotransferases	0.0118662327192853
GO:0006013	mannose metabolic process	0.0118662327192853
GO:0009059	macromolecule biosynthetic process	0.0118662327192853
GO:0046489	phosphoinositide biosynthetic process	0.0127001419728853
GO:0006506	GPI anchor biosynthetic process	0.0127001419728853
GO:0006505	GPI anchor metabolic process	0.0127001419728853
GO:0019319	hexose biosynthetic process	0.0127001419728853
GO:0046165	alcohol biosynthetic process	0.0127001419728853
GO:0046364	monosaccharide biosynthetic process	0.0127001419728853
GO:0016866	intramolecular transferase activity	0.0127001419728853
GO:0008375	acetylglucosaminyltransferase activity	0.0127001419728853
GO:0046474	glycerophospholipid biosynthetic process	0.0127001419728853
GO:0009058	biosynthetic process	0.0140788124567925
GO:0006497	protein amino acid lipidation	0.0155164378682723
GO:0030384	phosphoinositide metabolic process	0.0155164378682723
GO:0042158	lipoprotein biosynthetic process	0.0157007492328778
GO:0042157	lipoprotein metabolic process	0.0167282449499493
GO:0008654	phospholipid biosynthetic process	0.0167282449499493
GO:0006650	glycerophospholipid metabolic process	0.0167282449499493
GO:0046467	membrane lipid biosynthetic process	0.0198555935392707
GO:0016051	carbohydrate biosynthetic process	0.0208742371195118
GO:0008194	UDP-glycosyltransferase activity	0.0218107067656773
GO:0006644	phospholipid metabolic process	0.0282642874915134
GO:0019318	hexose metabolic process	0.0294755794378617
GO:0005996	monosaccharide metabolic process	0.0294755794378617
GO:0016758	transferase activity, transferring hexosyl groups	0.0294755794378617
GO:0006643	membrane lipid metabolic process	0.0310316901515955
GO:0016853	isomerase activity	0.0310316901515955
GO:0016757	transferase activity, transferring glycosyl groups	0.0451561517912396
GO:0008610	lipid biosynthetic process	0.0451561517912396
GO:0044262	cellular carbohydrate metabolic process	0.0458003654367581
GO:0006066	alcohol metabolic process	0.0458003654367581

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
non-terminally differentiated cell	4.92e-19	49
neural cell	4.78e-17	43
ectodermal cell	1.11e-16	44
neurectodermal cell	1.11e-16	44
electrically responsive cell	6.17e-14	39
electrically active cell	6.17e-14	39
neuron	4.58e-12	33
neuronal stem cell	4.58e-12	33
neuroblast	4.58e-12	33
electrically signaling cell	4.58e-12	33
CNS neuron (sensu Vertebrata)	4.28e-10	23
neuroblast (sensu Vertebrata)	4.28e-10	23
embryonic cell	2.62e-09	70

Uber Anatomy

Ontology term	p-value	n
nervous system	8.35e-29	75
central nervous system	3.06e-28	73
ectoderm-derived structure	2.32e-27	95
ectoderm	2.32e-27	95
presumptive ectoderm	2.32e-27	95
neurectoderm	1.93e-21	64
neural plate	1.93e-21	64
presumptive neural plate	1.93e-21	64
regional part of nervous system	1.21e-20	54
neural tube	3.15e-19	52
neural rod	3.15e-19	52
future spinal cord	3.15e-19	52
neural keel	3.15e-19	52
ecto-epithelium	8.58e-19	73
brain	7.51e-17	47
future brain	7.51e-17	47
gray matter	7.99e-17	34
structure with developmental contribution from neural crest	2.16e-16	92
regional part of brain	2.42e-16	46
brain grey matter	1.45e-14	29
regional part of telencephalon	1.45e-14	29
telencephalon	1.45e-14	29
pre-chordal neural plate	2.00e-14	49
anterior neural tube	3.63e-13	40
regional part of forebrain	1.19e-12	39
forebrain	1.19e-12	39
future forebrain	1.19e-12	39
cerebral cortex	1.93e-11	21
cerebral hemisphere	1.93e-11	21
pallium	1.93e-11	21
regional part of cerebral cortex	3.31e-10	17
occipital lobe	1.28e-07	10
visual cortex	1.28e-07	10
neocortex	1.28e-07	10
posterior neural tube	5.15e-07	12
chordal neural plate	5.15e-07	12

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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