MCL coexpression mm9:3247

Phase1 CAGE Peaks

	Short description
Mm9::chr1:174204455..174204475,-	p@chr1:174204455..174204475 -
Mm9::chr1:174228120..174228139,-	p1@Atp1a2
Mm9::chr2:71205623..71205634,-	p2@Slc25a12

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:0051481	reduction of cytosolic calcium ion concentration	0.00849152215471345
GO:0045988	negative regulation of striated muscle contraction	0.00849152215471345
GO:0043490	malate-aspartate shuttle	0.00849152215471345
GO:0006942	regulation of striated muscle contraction	0.00849152215471345
GO:0002087	neurological control of breathing	0.0101895474352689
GO:0003016	respiratory system process	0.012735887480134
GO:0045932	negative regulation of muscle contraction	0.012735887480134
GO:0045822	negative regulation of heart contraction	0.012735887480134
GO:0001504	neurotransmitter uptake	0.0132072251548221
GO:0019229	regulation of vasoconstriction	0.0135842022444435
GO:0005391	sodium:potassium-exchanging ATPase activity	0.0154357475493305
GO:0002026	regulation of the force of heart contraction	0.0183927537650214
GO:0042310	vasoconstriction	0.0206137938818341
GO:0006940	regulation of smooth muscle contraction	0.0206137938818341
GO:0051480	cytosolic calcium ion homeostasis	0.0215018377280429
GO:0007632	visual behavior	0.0219660155602007
GO:0008542	visual learning	0.0219660155602007
GO:0006939	smooth muscle contraction	0.0230766925527323
GO:0042383	sarcolemma	0.0230766925527323
GO:0051241	negative regulation of multicellular organismal process	0.0230766925527323
GO:0006941	striated muscle contraction	0.0230766925527323
GO:0006937	regulation of muscle contraction	0.0230766925527323
GO:0003018	vascular process in circulatory system	0.0230766925527323
GO:0035150	regulation of tube size	0.0230766925527323
GO:0050880	regulation of blood vessel size	0.0230766925527323
GO:0008016	regulation of heart contraction	0.0234930818595918
GO:0008217	regulation of blood pressure	0.0248798055474021
GO:0008344	adult locomotory behavior	0.0248798055474021
GO:0003015	heart process	0.0248798055474021
GO:0060047	heart contraction	0.0248798055474021
GO:0006836	neurotransmitter transport	0.025971803091423
GO:0007612	learning	0.025971803091423
GO:0006874	cellular calcium ion homeostasis	0.0287303129389502
GO:0015662	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism	0.0287303129389502
GO:0055074	calcium ion homeostasis	0.0287303129389502
GO:0030534	adult behavior	0.0287303129389502
GO:0006875	cellular metal ion homeostasis	0.0295579222601135
GO:0055065	metal ion homeostasis	0.0295579222601135
GO:0007611	learning and/or memory	0.0295579222601135
GO:0009416	response to light stimulus	0.030933771012325
GO:0031402	sodium ion binding	0.0319651090362122
GO:0042625	ATPase activity, coupled to transmembrane movement of ions	0.0319651090362122
GO:0003012	muscle system process	0.0319651090362122
GO:0006936	muscle contraction	0.0319651090362122
GO:0001505	regulation of neurotransmitter levels	0.0325234766376159
GO:0009314	response to radiation	0.0325234766376159
GO:0008015	blood circulation	0.0325234766376159
GO:0003013	circulatory system process	0.0325234766376159
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0325234766376159
GO:0015077	monovalent inorganic cation transmembrane transporter activity	0.0325234766376159
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0325482600833689
GO:0030003	cellular cation homeostasis	0.0338600114717001
GO:0055080	cation homeostasis	0.0338600114717001
GO:0030955	potassium ion binding	0.0338600114717001
GO:0006814	sodium ion transport	0.0338600114717001
GO:0043492	ATPase activity, coupled to movement of substances	0.0338600114717001
GO:0042626	ATPase activity, coupled to transmembrane movement of substances	0.0338600114717001
GO:0016820	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	0.0338600114717001
GO:0015399	primary active transmembrane transporter activity	0.036105435153291
GO:0015405	P-P-bond-hydrolysis-driven transmembrane transporter activity	0.036105435153291
GO:0022890	inorganic cation transmembrane transporter activity	0.0363428939980021
GO:0006810	transport	0.0379308700280174
GO:0055082	cellular chemical homeostasis	0.0379308700280174
GO:0006873	cellular ion homeostasis	0.0379308700280174
GO:0051234	establishment of localization	0.0379308700280174
GO:0035239	tube morphogenesis	0.0379308700280174
GO:0005792	microsome	0.0380537807894322
GO:0006813	potassium ion transport	0.0380537807894322
GO:0042598	vesicular fraction	0.0384784939438254
GO:0050801	ion homeostasis	0.040002486394148
GO:0009628	response to abiotic stimulus	0.040002486394148
GO:0031420	alkali metal ion binding	0.0415498292225967
GO:0051179	localization	0.0433805360234735
GO:0007268	synaptic transmission	0.0433805360234735
GO:0035295	tube development	0.0448918266372321
GO:0007626	locomotory behavior	0.0448918266372321
GO:0048878	chemical homeostasis	0.0456173786585225
GO:0019725	cellular homeostasis	0.0456782725779116
GO:0042623	ATPase activity, coupled	0.0474730127310945
GO:0019226	transmission of nerve impulse	0.0474730127310945
GO:0005743	mitochondrial inner membrane	0.0477152101550416
GO:0019866	organelle inner membrane	0.0489735652120997

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)	1.79e-07	23
neuroblast (sensu Vertebrata)	1.79e-07	23
neuron	4.46e-07	33
neuronal stem cell	4.46e-07	33
neuroblast	4.46e-07	33
electrically signaling cell	4.46e-07	33

Uber Anatomy

Ontology term	p-value	n
structure with developmental contribution from neural crest	3.79e-20	92
central nervous system	1.31e-19	73
nervous system	4.31e-19	75
ectoderm-derived structure	7.43e-19	95
ectoderm	7.43e-19	95
presumptive ectoderm	7.43e-19	95
regional part of nervous system	8.51e-19	54
neural tube	1.67e-17	52
neural rod	1.67e-17	52
future spinal cord	1.67e-17	52
neural keel	1.67e-17	52
ecto-epithelium	1.48e-16	73
neurectoderm	1.31e-15	64
neural plate	1.31e-15	64
presumptive neural plate	1.31e-15	64
brain	1.90e-15	47
future brain	1.90e-15	47
regional part of brain	7.31e-15	46
gray matter	4.67e-13	34
anterior neural tube	1.56e-12	40
regional part of forebrain	6.72e-12	39
forebrain	6.72e-12	39
future forebrain	6.72e-12	39
anatomical conduit	1.57e-11	122
brain grey matter	3.19e-11	29
regional part of telencephalon	3.19e-11	29
telencephalon	3.19e-11	29
tube	5.50e-11	114
pre-chordal neural plate	9.56e-11	49
regional part of cerebral cortex	2.18e-08	17
cerebral cortex	2.90e-08	21
cerebral hemisphere	2.90e-08	21
pallium	2.90e-08	21
occipital lobe	7.53e-07	10
visual cortex	7.53e-07	10
neocortex	7.53e-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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