MCL coexpression mm9:519

Phase1 CAGE Peaks

	Short description
Mm9::chr10:77815034..77815062,-	p4@Agpat3
Mm9::chr16:91225691..91225700,+	p5@Olig2
Mm9::chr16:91225808..91225824,+	p1@Olig2
Mm9::chr16:91269972..91269978,+	p3@Olig1
Mm9::chr16:91270004..91270023,+	p1@Olig1
Mm9::chr16:91270091..91270143,+	p2@Olig1
Mm9::chr5:33084895..33084903,-	p5@Pisd
Mm9::chr6:120723567..120723597,+	p1@Slc25a18
Mm9::chr6:120723602..120723604,+	p3@Slc25a18
Mm9::chr6:120723629..120723642,+	p2@Slc25a18
Mm9::chr6:120723651..120723654,+	p4@Slc25a18
Mm9::chr6:85163894..85163900,-	p@chr6:85163894..85163900 -
Mm9::chr7:29551766..29551841,+	p1@Sirt2
Mm9::chr9:119977381..119977409,-	p1@Cx3cr1

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:0048663	neuron fate commitment	0.00328124834416348
GO:0044451	nucleoplasm part	0.0216479470319356
GO:0045165	cell fate commitment	0.0216479470319356
GO:0005654	nucleoplasm	0.0216479470319356
GO:0031981	nuclear lumen	0.0255129623200036
GO:0004609	phosphatidylserine decarboxylase activity	0.0255129623200036
GO:0031974	membrane-enclosed lumen	0.0255129623200036
GO:0043233	organelle lumen	0.0255129623200036
GO:0045892	negative regulation of transcription, DNA-dependent	0.029467491566657
GO:0016481	negative regulation of transcription	0.0338399603669903
GO:0005677	chromatin silencing complex	0.0338399603669903
GO:0044428	nuclear part	0.0338399603669903
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0338399603669903
GO:0044446	intracellular organelle part	0.0338399603669903
GO:0044422	organelle part	0.0338399603669903
GO:0048709	oligodendrocyte differentiation	0.0338399603669903
GO:0030182	neuron differentiation	0.0338399603669903
GO:0031324	negative regulation of cellular metabolic process	0.0353489451883645
GO:0048699	generation of neurons	0.0353489451883645
GO:0006342	chromatin silencing	0.0353489451883645
GO:0031507	heterochromatin formation	0.0353489451883645
GO:0009892	negative regulation of metabolic process	0.035679063989088
GO:0022008	neurogenesis	0.035679063989088
GO:0045814	negative regulation of gene expression, epigenetic	0.035679063989088
GO:0003705	RNA polymerase II transcription factor activity, enhancer binding	0.0433619796683617
GO:0016585	chromatin remodeling complex	0.04388263289812
GO:0005667	transcription factor complex	0.0466304394042769
GO:0004950	chemokine receptor activity	0.0466304394042769
GO:0019956	chemokine binding	0.0466304394042769
GO:0001637	G-protein chemoattractant receptor activity	0.0466304394042769
GO:0016831	carboxy-lyase activity	0.0466304394042769
GO:0042552	myelination	0.0466304394042769
GO:0016458	gene silencing	0.0466304394042769
GO:0007272	ensheathment of neurons	0.0472096397336174
GO:0008366	axon ensheathment	0.0472096397336174
GO:0043234	protein complex	0.0492691316908081

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
ectodermal cell	3.30e-17	44
neurectodermal cell	3.30e-17	44
neural cell	9.27e-17	43
CNS neuron (sensu Vertebrata)	1.00e-16	23
neuroblast (sensu Vertebrata)	1.00e-16	23
non-terminally differentiated cell	2.46e-13	49
neuron	3.91e-11	33
neuronal stem cell	3.91e-11	33
neuroblast	3.91e-11	33
electrically signaling cell	3.91e-11	33
electrically responsive cell	2.90e-08	39
electrically active cell	2.90e-08	39
migratory neural crest cell	5.99e-07	10
neuron associated cell	5.99e-07	10
glial cell (sensu Vertebrata)	5.99e-07	10
neuron associated cell (sensu Vertebrata)	5.99e-07	10
glial cell	5.99e-07	10
glioblast	5.99e-07	10
glioblast (sensu Vertebrata)	5.99e-07	10
embryonic cell	6.99e-07	70

Uber Anatomy

Ontology term	p-value	n
nervous system	2.28e-38	75
central nervous system	1.38e-37	73
regional part of nervous system	9.76e-35	54
neural tube	1.41e-32	52
neural rod	1.41e-32	52
future spinal cord	1.41e-32	52
neural keel	1.41e-32	52
ectoderm-derived structure	4.05e-31	95
ectoderm	4.05e-31	95
presumptive ectoderm	4.05e-31	95
neurectoderm	5.42e-28	64
neural plate	5.42e-28	64
presumptive neural plate	5.42e-28	64
brain	1.59e-27	47
future brain	1.59e-27	47
gray matter	9.58e-27	34
regional part of brain	1.43e-26	46
ecto-epithelium	2.13e-23	73
anterior neural tube	1.06e-22	40
brain grey matter	5.34e-22	29
regional part of telencephalon	5.34e-22	29
telencephalon	5.34e-22	29
regional part of forebrain	8.33e-22	39
forebrain	8.33e-22	39
future forebrain	8.33e-22	39
pre-chordal neural plate	1.20e-20	49
cerebral cortex	1.98e-15	21
cerebral hemisphere	1.98e-15	21
pallium	1.98e-15	21
structure with developmental contribution from neural crest	5.31e-15	92
regional part of cerebral cortex	3.22e-13	17
occipital lobe	2.75e-10	10
visual cortex	2.75e-10	10
neocortex	2.75e-10	10
posterior neural tube	3.33e-10	12
chordal neural plate	3.33e-10	12
basal ganglion	9.95e-08	8
nuclear complex of neuraxis	9.95e-08	8
aggregate regional part of brain	9.95e-08	8
collection of basal ganglia	9.95e-08	8
cerebral subcortex	9.95e-08	8
spinal cord	5.47e-07	6
dorsal region element	5.47e-07	6
dorsum	5.47e-07	6

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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