MCL coexpression mm9:293

Phase1 CAGE Peaks

	Short description
Mm9::chr10:39139854..39139880,+	p3@Fyn
Mm9::chr11:100437196..100437214,+	p3@Cnp
Mm9::chr11:58996296..58996303,-	p3@Gjc2
Mm9::chr11:70420158..70420172,+	p5@Mink1
Mm9::chr11:78138175..78138191,+	p9@Aldoc
Mm9::chr11:8522555..8522588,-	p@chr11:8522555..8522588 -
Mm9::chr12:3806003..3806031,+	p11@Dnmt3a
Mm9::chr12:86865781..86865791,+	p@chr12:86865781..86865791 +
Mm9::chr13:51844144..51844190,-	p4@Sema4d
Mm9::chr14:70928312..70928353,+	p@chr14:70928312..70928353 +
Mm9::chr15:80003618..80003634,+	p@chr15:80003618..80003634 +
Mm9::chr18:32109225..32109242,-	p1@Gpr17
Mm9::chr18:32114761..32114783,+	p@chr18:32114761..32114783 +
Mm9::chr1:134603826..134603860,-	p2@Nfasc
Mm9::chr1:134603881..134603894,-	p3@Nfasc
Mm9::chr1:134603916..134603928,-	p4@Nfasc
Mm9::chr2:152777263..152777276,-	p2@Dusp15
Mm9::chr2:29701822..29701836,-	p@chr2:29701822..29701836 -
Mm9::chr2:29701996..29702014,-	p@chr2:29701996..29702014 -
Mm9::chr3:87804765..87804788,-	p7@Bcan
Mm9::chr3:87804816..87804827,-	p@chr3:87804816..87804827 -
Mm9::chr5:125583272..125583283,-	p@chr5:125583272..125583283 -
Mm9::chr7:29075714..29075740,-	p@chr7:29075714..29075740 -
Mm9::chr7:29346063..29346073,-	p@chr7:29346063..29346073 -
Mm9::chr7:29346120..29346131,-	p@chr7:29346120..29346131 -
Mm9::chr7:29551856..29551868,+	p2@Sirt2
Mm9::chr7:29569372..29569384,+	p5@Sirt2
Mm9::chr9:120084593..120084603,+	p@chr9:120084593..120084603 +

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:0006342	chromatin silencing	0.00655901656221973
GO:0031507	heterochromatin formation	0.00655901656221973
GO:0045814	negative regulation of gene expression, epigenetic	0.00655901656221973
GO:0016458	gene silencing	0.0163581245209923
GO:0006338	chromatin remodeling	0.0247222116908219
GO:0040029	regulation of gene expression, epigenetic	0.0278597844445692
GO:0003830	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity	0.0378020051498384

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)	1.20e-08	23
neuroblast (sensu Vertebrata)	1.20e-08	23
raphe nuclei neuron	8.87e-07	3

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	1.75e-31	54
neural tube	2.12e-28	52
neural rod	2.12e-28	52
future spinal cord	2.12e-28	52
neural keel	2.12e-28	52
central nervous system	2.38e-28	73
nervous system	2.35e-27	75
neurectoderm	1.44e-26	64
neural plate	1.44e-26	64
presumptive neural plate	1.44e-26	64
ectoderm-derived structure	9.09e-24	95
ectoderm	9.09e-24	95
presumptive ectoderm	9.09e-24	95
gray matter	1.18e-23	34
ecto-epithelium	2.93e-22	73
brain	1.54e-20	47
future brain	1.54e-20	47
regional part of brain	2.53e-19	46
occipital lobe	6.24e-19	10
visual cortex	6.24e-19	10
neocortex	6.24e-19	10
structure with developmental contribution from neural crest	6.07e-16	92
brain grey matter	8.28e-16	29
regional part of telencephalon	8.28e-16	29
telencephalon	8.28e-16	29
posterior neural tube	8.36e-16	12
chordal neural plate	8.36e-16	12
pre-chordal neural plate	1.80e-15	49
anterior neural tube	3.65e-15	40
regional part of forebrain	6.33e-14	39
forebrain	6.33e-14	39
future forebrain	6.33e-14	39
spinal cord	1.30e-12	6
dorsal region element	1.30e-12	6
dorsum	1.30e-12	6
regional part of cerebral cortex	2.57e-12	17
cerebral cortex	2.80e-11	21
cerebral hemisphere	2.80e-11	21
pallium	2.80e-11	21
regional part of spinal cord	8.46e-11	5
gray matter of spinal cord	8.46e-11	5
tube	8.67e-09	114
regional part of midbrain	3.74e-08	4
midbrain	3.74e-08	4
presumptive midbrain	3.74e-08	4
midbrain neural tube	3.74e-08	4
anatomical conduit	9.80e-08	122
raphe nuclei	8.87e-07	3
reticular formation	8.87e-07	3

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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