MCL coexpression mm9:705

Phase1 CAGE Peaks

	Short description
Mm9::chr11:16157637..16157652,+	p4@Vstm2a
Mm9::chr13:106234341..106234351,+	p@chr13:106234341..106234351 +
Mm9::chr14:112073980..112074036,-	p@chr14:112073980..112074036 -
Mm9::chr7:64764749..64764765,-	p@chr7:64764749..64764765 -
Mm9::chr7:64764767..64764780,-	p@chr7:64764767..64764780 -
Mm9::chr7:64764781..64764795,-	p@chr7:64764781..64764795 -
Mm9::chr7:64764809..64764823,-	p@chr7:64764809..64764823 -
Mm9::chr7:64765286..64765346,-	p1@Gabra5
Mm9::chr7:64765354..64765363,-	p3@Gabra5
Mm9::chr7:64765365..64765426,-	p2@Gabra5

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:0002209	behavioral defense response	0.0190246674828766
GO:0001662	behavioral fear response	0.0190246674828766
GO:0008306	associative learning	0.0190246674828766
GO:0042596	fear response	0.0190246674828766
GO:0005887	integral to plasma membrane	0.0190246674828766
GO:0031226	intrinsic to plasma membrane	0.0190246674828766
GO:0007214	gamma-aminobutyric acid signaling pathway	0.0190246674828766
GO:0033555	multicellular organismal response to stress	0.0194664872195928
GO:0004890	GABA-A receptor activity	0.0194664872195928
GO:0016917	GABA receptor activity	0.0196206054480142
GO:0007612	learning	0.0247101592123163
GO:0043168	anion binding	0.0247101592123163
GO:0031404	chloride ion binding	0.0247101592123163
GO:0005254	chloride channel activity	0.0247101592123163
GO:0044459	plasma membrane part	0.0247101592123163
GO:0006821	chloride transport	0.0247101592123163
GO:0005253	anion channel activity	0.0247101592123163
GO:0005230	extracellular ligand-gated ion channel activity	0.0250514682381132
GO:0007611	learning and/or memory	0.0250514682381132
GO:0015276	ligand-gated ion channel activity	0.0262664065537355
GO:0022834	ligand-gated channel activity	0.0262664065537355
GO:0030594	neurotransmitter receptor activity	0.0262664065537355
GO:0042165	neurotransmitter binding	0.0262664065537355
GO:0007186	G-protein coupled receptor protein signaling pathway	0.0262664065537355
GO:0005886	plasma membrane	0.0274920998339277
GO:0045211	postsynaptic membrane	0.0279648895808937
GO:0004888	transmembrane receptor activity	0.0279648895808937
GO:0008509	anion transmembrane transporter activity	0.0279648895808937
GO:0044456	synapse part	0.0291630589351352
GO:0015698	inorganic anion transport	0.0326006029880489
GO:0006820	anion transport	0.0362553679268739
GO:0007166	cell surface receptor linked signal transduction	0.0362553679268739
GO:0004872	receptor activity	0.0447147772813943
GO:0004871	signal transducer activity	0.0487579520404472
GO:0060089	molecular transducer activity	0.0487579520404472

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)	2.68e-21	23
neuroblast (sensu Vertebrata)	2.68e-21	23
neuron	2.07e-12	33
neuronal stem cell	2.07e-12	33
neuroblast	2.07e-12	33
electrically signaling cell	2.07e-12	33
electrically responsive cell	2.32e-09	39
electrically active cell	2.32e-09	39
neural cell	1.58e-08	43
ectodermal cell	3.58e-08	44
neurectodermal cell	3.58e-08	44

Uber Anatomy

Ontology term	p-value	n
regional part of nervous system	2.19e-30	54
gray matter	5.08e-30	34
neural tube	1.50e-28	52
neural rod	1.50e-28	52
future spinal cord	1.50e-28	52
neural keel	1.50e-28	52
central nervous system	2.24e-25	73
nervous system	2.90e-25	75
brain grey matter	3.45e-24	29
regional part of telencephalon	3.45e-24	29
telencephalon	3.45e-24	29
anterior neural tube	1.64e-23	40
neurectoderm	1.67e-23	64
neural plate	1.67e-23	64
presumptive neural plate	1.67e-23	64
brain	3.43e-23	47
future brain	3.43e-23	47
regional part of forebrain	1.86e-22	39
forebrain	1.86e-22	39
future forebrain	1.86e-22	39
regional part of brain	4.43e-22	46
pre-chordal neural plate	3.57e-20	49
ectoderm-derived structure	8.57e-19	95
ectoderm	8.57e-19	95
presumptive ectoderm	8.57e-19	95
ecto-epithelium	9.56e-19	73
cerebral cortex	7.98e-17	21
cerebral hemisphere	7.98e-17	21
pallium	7.98e-17	21
regional part of cerebral cortex	6.28e-14	17
structure with developmental contribution from neural crest	6.34e-12	92
occipital lobe	1.04e-11	10
visual cortex	1.04e-11	10
neocortex	1.04e-11	10
basal ganglion	1.75e-08	8
nuclear complex of neuraxis	1.75e-08	8
aggregate regional part of brain	1.75e-08	8
collection of basal ganglia	1.75e-08	8
cerebral subcortex	1.75e-08	8
spinal cord	5.58e-08	6
dorsal region element	5.58e-08	6
dorsum	5.58e-08	6
regional part of spinal cord	5.16e-07	5
gray matter of spinal cord	5.16e-07	5

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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