MCL coexpression mm9:281

Phase1 CAGE Peaks

	Short description
Mm9::chr10:4707315..4707330,-	p1@Vip
Mm9::chr10:48938780..48938784,-	p@chr10:48938780..48938784 -
Mm9::chr10:49503296..49503388,-	p3@Grik2
Mm9::chr10:49508549..49508575,-	p1@Grik2
Mm9::chr12:39507404..39507441,+	p4@Etv1
Mm9::chr18:23656049..23656109,+	p3@Dtna
Mm9::chr19:10379357..10379444,-	p1@Dagla
Mm9::chr19:42506268..42506282,-	p1@Crtac1
Mm9::chr3:123393724..123393765,-	p2@Ndst3
Mm9::chr3:75361452..75361483,+	p1@Serpini1
Mm9::chr4:152857048..152857081,-	p1@Ajap1
Mm9::chr4:66007191..66007194,-	p@chr4:66007191..66007194 -
Mm9::chr4:66065468..66065490,-	p2@Astn2
Mm9::chr4:66065492..66065543,-	p1@Astn2
Mm9::chr4:9196485..9196509,+	p2@Clvs1
Mm9::chr6:82889553..82889581,-	p2@Sema4f
Mm9::chr7:51842709..51842745,+	p@chr7:51842709..51842745 +
Mm9::chr7:98691475..98691503,+	p12@Dlg2
Mm9::chr7:98691504..98691553,+	p5@Dlg2
Mm9::chr7:99473169..99473173,+	p@chr7:99473169..99473173 +
Mm9::chr9:4635267..4635271,-	p@chr9:4635267..4635271 -
Mm9::chr9:4765243..4765247,-	p@chr9:4765243..4765247 -
Mm9::chr9:4795561..4795644,-	p3@Gria4
Mm9::chr9:4796022..4796033,-	p10@Gria4
Mm9::chr9:4796034..4796066,-	p5@Gria4
Mm9::chr9:4796070..4796081,-	p9@Gria4
Mm9::chr9:4796141..4796159,-	p6@Gria4
Mm9::chr9:4796160..4796195,-	p2@Gria4
Mm9::chr9:4796196..4796216,-	p4@Gria4
Mm9::chr9:62384753..62384758,-	p16@Coro2b

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:0045211	postsynaptic membrane	0.00470690023203389
GO:0005234	extracellular-glutamate-gated ion channel activity	0.00470690023203389
GO:0004970	ionotropic glutamate receptor activity	0.00470690023203389
GO:0044456	synapse part	0.00470690023203389
GO:0030054	cell junction	0.00620867731463551
GO:0005231	excitatory extracellular ligand-gated ion channel activity	0.0139163769570832
GO:0008066	glutamate receptor activity	0.0139163769570832
GO:0016014	dystrobrevin complex	0.01840793294253
GO:0005230	extracellular ligand-gated ion channel activity	0.0235807865386546
GO:0015277	kainate selective glutamate receptor activity	0.026499165811143
GO:0007411	axon guidance	0.026499165811143
GO:0015276	ligand-gated ion channel activity	0.026499165811143
GO:0022834	ligand-gated channel activity	0.026499165811143
GO:0007638	mechanosensory behavior	0.0392283199289765
GO:0015016	[heparan sulfate]-glucosamine N-sulfotransferase activity	0.0392283199289765

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
neuron	1.33e-15	33
neuronal stem cell	1.33e-15	33
neuroblast	1.33e-15	33
electrically signaling cell	1.33e-15	33
electrically responsive cell	7.73e-13	39
electrically active cell	7.73e-13	39
ectodermal cell	1.78e-12	44
neurectodermal cell	1.78e-12	44
neural cell	4.51e-12	43
non-terminally differentiated cell	2.70e-10	49
CNS neuron (sensu Vertebrata)	1.83e-09	23
neuroblast (sensu Vertebrata)	1.83e-09	23
autonomic neuron	1.64e-07	9

Uber Anatomy

Ontology term	p-value	n
central nervous system	7.36e-29	73
nervous system	2.05e-28	75
ectoderm-derived structure	9.93e-28	95
ectoderm	9.93e-28	95
presumptive ectoderm	9.93e-28	95
neurectoderm	2.86e-24	64
neural plate	2.86e-24	64
presumptive neural plate	2.86e-24	64
ecto-epithelium	4.86e-22	73
regional part of nervous system	1.07e-20	54
structure with developmental contribution from neural crest	1.15e-19	92
neural tube	1.49e-19	52
neural rod	1.49e-19	52
future spinal cord	1.49e-19	52
neural keel	1.49e-19	52
pre-chordal neural plate	5.68e-17	49
brain	6.11e-17	47
future brain	6.11e-17	47
regional part of brain	2.68e-16	46
anterior neural tube	1.20e-14	40
gray matter	4.62e-14	34
regional part of forebrain	4.71e-14	39
forebrain	4.71e-14	39
future forebrain	4.71e-14	39
brain grey matter	1.62e-11	29
regional part of telencephalon	1.62e-11	29
telencephalon	1.62e-11	29
multi-cellular organism	2.54e-09	333
cerebral cortex	7.12e-08	21
cerebral hemisphere	7.12e-08	21
pallium	7.12e-08	21
regional part of cerebral cortex	1.63e-07	17
autonomic nervous system	1.64e-07	9
occipital lobe	2.82e-07	10
visual cortex	2.82e-07	10
neocortex	2.82e-07	10

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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