MCL coexpression mm9:1052

Phase1 CAGE Peaks

	Short description
Mm9::chr11:100215439..100215457,-	p5@Hap1
Mm9::chr1:38851929..38851932,-	p@chr1:38851929..38851932 -
Mm9::chr1:84367076..84367079,-	p@chr1:84367076..84367079 -
Mm9::chr1:84577274..84577285,-	p@chr1:84577274..84577285 -
Mm9::chr5:38550223..38550234,-	p@chr5:38550223..38550234 -
Mm9::chr8:116813265..116813288,+	p@chr8:116813265..116813288 +
Mm9::chr8:61392493..61392501,+	p@chr8:61392493..61392501 +

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:0030503	regulation of cell redox homeostasis	0.0120518227025482
GO:0050780	dopamine receptor binding	0.0120518227025482
GO:0003906	DNA-(apurinic or apyrimidinic site) lyase activity	0.0140593041970687
GO:0007212	dopamine receptor signaling pathway	0.0271062004775957

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)	1.50e-30	23
neuroblast (sensu Vertebrata)	1.50e-30	23
neuron	2.44e-22	33
neuronal stem cell	2.44e-22	33
neuroblast	2.44e-22	33
electrically signaling cell	2.44e-22	33
ectodermal cell	1.38e-21	44
neurectodermal cell	1.38e-21	44
neural cell	7.24e-21	43
electrically responsive cell	1.35e-17	39
electrically active cell	1.35e-17	39
non-terminally differentiated cell	3.78e-17	49
embryonic cell	4.30e-10	70
neuron of cerebral cortex	1.25e-07	6

Uber Anatomy

Ontology term	p-value	n
central nervous system	1.30e-36	73
nervous system	3.17e-35	75
regional part of nervous system	1.33e-32	54
neurectoderm	4.55e-32	64
neural plate	4.55e-32	64
presumptive neural plate	4.55e-32	64
ectoderm-derived structure	4.78e-32	95
ectoderm	4.78e-32	95
presumptive ectoderm	4.78e-32	95
neural tube	6.56e-30	52
neural rod	6.56e-30	52
future spinal cord	6.56e-30	52
neural keel	6.56e-30	52
gray matter	2.12e-28	34
ecto-epithelium	1.03e-27	73
structure with developmental contribution from neural crest	1.65e-23	92
brain	2.40e-23	47
future brain	2.40e-23	47
regional part of brain	2.00e-22	46
brain grey matter	1.20e-21	29
regional part of telencephalon	1.20e-21	29
telencephalon	1.20e-21	29
pre-chordal neural plate	8.45e-21	49
anterior neural tube	8.48e-20	40
regional part of forebrain	9.93e-19	39
forebrain	9.93e-19	39
future forebrain	9.93e-19	39
cerebral cortex	3.24e-12	21
cerebral hemisphere	3.24e-12	21
pallium	3.24e-12	21
basal ganglion	1.83e-11	8
nuclear complex of neuraxis	1.83e-11	8
aggregate regional part of brain	1.83e-11	8
collection of basal ganglia	1.83e-11	8
cerebral subcortex	1.83e-11	8
posterior neural tube	9.24e-11	12
chordal neural plate	9.24e-11	12
spinal cord	2.31e-09	6
dorsal region element	2.31e-09	6
dorsum	2.31e-09	6
regional part of cerebral cortex	8.70e-09	17
regional part of spinal cord	2.76e-08	5
gray matter of spinal cord	2.76e-08	5
tube	1.92e-07	114
corpus striatum	2.32e-07	5
striatum	2.32e-07	5
ventral part of telencephalon	2.32e-07	5
future corpus striatum	2.32e-07	5
regional part of midbrain	8.13e-07	4
midbrain	8.13e-07	4
presumptive midbrain	8.13e-07	4
midbrain neural tube	8.13e-07	4
anatomical conduit	8.38e-07	122

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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