MCL coexpression mm9:342

Phase1 CAGE Peaks

	Short description
Mm9::chr11:11781140..11781150,-	p@chr11:11781140..11781150 -
Mm9::chr12:105433069..105433075,-	p@chr12:105433069..105433075 -
Mm9::chr14:58802053..58802059,-	p@chr14:58802053..58802059 -
Mm9::chr3:37265803..37265817,+	p7@Fgf2
Mm9::chr4:147375200..147375220,+	p@chr4:147375200..147375220 +
Mm9::chr5:88385298..88385340,+	p@chr5:88385298..88385340 +
Mm9::chr8:125950637..125950639,-	p@chr8:125950637..125950639 -
Mm9::chr8:125951458..125951466,-	p@chr8:125951458..125951466 -
Mm9::chr8:125951545..125951559,-	p@chr8:125951545..125951559 -
Mm9::chr8:125951622..125951629,-	p@chr8:125951622..125951629 -
Mm9::chr8:125951737..125951748,-	p@chr8:125951737..125951748 -
Mm9::chr8:125952002..125952012,-	p@chr8:125952002..125952012 -
Mm9::chr8:125952310..125952320,+	p@chr8:125952310..125952320 +
Mm9::chr8:125952865..125952872,-	p@chr8:125952865..125952872 -
Mm9::chr8:125952972..125952981,-	p@chr8:125952972..125952981 -
Mm9::chr8:125953346..125953349,-	p@chr8:125953346..125953349 -
Mm9::chr8:125953495..125953499,-	p@chr8:125953495..125953499 -
Mm9::chr8:125956179..125956189,-	p@chr8:125956179..125956189 -
Mm9::chr8:125956252..125956255,-	p@chr8:125956252..125956255 -
Mm9::chr8:125956332..125956339,-	p@chr8:125956332..125956339 -
Mm9::chr8:125956453..125956462,-	p@chr8:125956453..125956462 -
Mm9::chr8:125956513..125956519,-	p@chr8:125956513..125956519 -
Mm9::chr8:125956526..125956533,-	p@chr8:125956526..125956533 -

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:0045794	negative regulation of cell volume	0.00890264614036049
GO:0032344	regulation of aldosterone metabolic process	0.00890264614036049
GO:0060082	eye blink reflex	0.00890264614036049
GO:0004058	aromatic-L-amino-acid decarboxylase activity	0.00890264614036049
GO:0032196	transposition	0.00890264614036049
GO:0006313	transposition, DNA-mediated	0.00890264614036049
GO:0019228	generation of action potential	0.00890264614036049
GO:0060072	large conductance calcium-activated potassium channel activity	0.00890264614036049
GO:0032341	aldosterone metabolic process	0.0129482392672005
GO:0060083	smooth muscle contraction involved in micturition	0.0129482392672005
GO:0008212	mineralocorticoid metabolic process	0.0129482392672005
GO:0007423	sensory organ development	0.0133517743582362
GO:0046541	saliva secretion	0.0133517743582362
GO:0060087	relaxation of vascular smooth muscle	0.0133517743582362
GO:0045475	locomotor rhythm	0.0133517743582362
GO:0032350	regulation of hormone metabolic process	0.0133517743582362
GO:0035295	tube development	0.0136405841796192
GO:0046668	regulation of retinal cell programmed cell death	0.0149902338833339
GO:0006884	regulation of cell volume	0.0149902338833339
GO:0060073	micturition	0.0161813088807534
GO:0048512	circadian behavior	0.0161813088807534
GO:0045986	negative regulation of smooth muscle contraction	0.0161813088807534
GO:0043195	terminal button	0.0166100798772788
GO:0046666	retinal cell programmed cell death	0.0166100798772788
GO:0045932	negative regulation of muscle contraction	0.0166100798772788
GO:0006519	amino acid and derivative metabolic process	0.0166100798772788
GO:0019218	regulation of steroid metabolic process	0.0166100798772788
GO:0045766	positive regulation of angiogenesis	0.0166100798772788
GO:0003964	RNA-directed DNA polymerase activity	0.0166100798772788
GO:0007622	rhythmic behavior	0.0166100798772788
GO:0060004	reflex	0.0169448824132453
GO:0007267	cell-cell signaling	0.0169448824132453
GO:0009308	amine metabolic process	0.0169448824132453
GO:0021940	positive regulation of granule cell precursor proliferation	0.0169448824132453
GO:0019031	viral envelope	0.0169448824132453
GO:0033267	axon part	0.0169448824132453
GO:0021936	regulation of granule cell precursor proliferation	0.0169448824132453
GO:0006807	nitrogen compound metabolic process	0.0169448824132453
GO:0042423	catecholamine biosynthetic process	0.0169448824132453
GO:0021930	granule cell precursor proliferation	0.0169448824132453
GO:0021534	cell proliferation in hindbrain	0.0169448824132453
GO:0021924	cell proliferation in the external granule layer	0.0169448824132453
GO:0000186	activation of MAPKK activity	0.0173953161140378
GO:0015269	calcium-activated potassium channel activity	0.0173953161140378
GO:0007589	fluid secretion	0.0173953161140378
GO:0010092	specification of organ identity	0.0181096647399395
GO:0022600	digestive system process	0.0181096647399395
GO:0022839	ion gated channel activity	0.0181096647399395
GO:0001759	induction of an organ	0.0181096647399395
GO:0031128	induction	0.0181096647399395
GO:0042311	vasodilation	0.0181096647399395
GO:0044423	virion part	0.0181096647399395
GO:0045168	cell-cell signaling during cell fate commitment	0.0181096647399395
GO:0005227	calcium activated cation channel activity	0.0181096647399395
GO:0003014	renal system process	0.0181096647399395
GO:0050679	positive regulation of epithelial cell proliferation	0.0190551599685365
GO:0019752	carboxylic acid metabolic process	0.0195566751615055
GO:0006082	organic acid metabolic process	0.0195566751615055
GO:0006940	regulation of smooth muscle contraction	0.0204943845685066
GO:0004190	aspartic-type endopeptidase activity	0.021336517097799
GO:0019216	regulation of lipid metabolic process	0.0217935754465432
GO:0005104	fibroblast growth factor receptor binding	0.0217935754465432
GO:0051260	protein homooligomerization	0.0233310614519163
GO:0001666	response to hypoxia	0.0233310614519163
GO:0007628	adult walking behavior	0.0240640544446906
GO:0042491	auditory receptor cell differentiation	0.0247746585682556
GO:0042401	biogenic amine biosynthetic process	0.0250894075588815
GO:0050678	regulation of epithelial cell proliferation	0.0250894075588815
GO:0016831	carboxy-lyase activity	0.025930627077134
GO:0006939	smooth muscle contraction	0.025930627077134
GO:0001934	positive regulation of protein amino acid phosphorylation	0.025930627077134
GO:0033240	positive regulation of amine metabolic process	0.025930627077134
GO:0045764	positive regulation of amino acid metabolic process	0.025930627077134
GO:0060113	inner ear receptor cell differentiation	0.025930627077134
GO:0042398	amino acid derivative biosynthetic process	0.0259944882515241
GO:0051241	negative regulation of multicellular organismal process	0.0259944882515241
GO:0018958	phenol metabolic process	0.0259944882515241
GO:0007623	circadian rhythm	0.0259944882515241
GO:0006584	catecholamine metabolic process	0.0259944882515241
GO:0051259	protein oligomerization	0.0259944882515241
GO:0045765	regulation of angiogenesis	0.0259944882515241
GO:0032147	activation of protein kinase activity	0.0259944882515241
GO:0050673	epithelial cell proliferation	0.0265351635456519
GO:0050885	neuromuscular process controlling balance	0.027062826715482
GO:0006937	regulation of muscle contraction	0.0271343841043562
GO:0042490	mechanoreceptor differentiation	0.0271343841043562
GO:0035150	regulation of tube size	0.0271343841043562
GO:0050880	regulation of blood vessel size	0.0271343841043562
GO:0003018	vascular process in circulatory system	0.0271343841043562
GO:0010001	glial cell differentiation	0.0296503924151127
GO:0016830	carbon-carbon lyase activity	0.0296503924151127
GO:0007586	digestion	0.0308666142778457
GO:0042063	gliogenesis	0.0310544238753382
GO:0008344	adult locomotory behavior	0.0310544238753382
GO:0030902	hindbrain development	0.0310544238753382
GO:0042391	regulation of membrane potential	0.0310544238753382
GO:0048592	eye morphogenesis	0.0314634567007677
GO:0030170	pyridoxal phosphate binding	0.0329704769089509
GO:0045597	positive regulation of cell differentiation	0.0329704769089509
GO:0050905	neuromuscular process	0.0333476121965123
GO:0016324	apical plasma membrane	0.0344167751500116
GO:0033238	regulation of amine metabolic process	0.0354616015674823
GO:0001932	regulation of protein amino acid phosphorylation	0.0354616015674823
GO:0006521	regulation of amino acid metabolic process	0.0354616015674823
GO:0008076	voltage-gated potassium channel complex	0.0364687924247634
GO:0042325	regulation of phosphorylation	0.0367629008567103
GO:0051174	regulation of phosphorus metabolic process	0.0367629008567103
GO:0019220	regulation of phosphate metabolic process	0.0367629008567103
GO:0044238	primary metabolic process	0.0375257099524355
GO:0009309	amine biosynthetic process	0.0375257099524355
GO:0008201	heparin binding	0.0375257099524355
GO:0048519	negative regulation of biological process	0.0375257099524355
GO:0044237	cellular metabolic process	0.0375257099524355
GO:0030534	adult behavior	0.0379220605897542
GO:0030424	axon	0.0382054290145383
GO:0030324	lung development	0.0390914509679259
GO:0030323	respiratory tube development	0.0393596825726832
GO:0044463	cell projection part	0.040817260730519
GO:0051094	positive regulation of developmental process	0.0409692666526285
GO:0050878	regulation of body fluid levels	0.0409692666526285
GO:0048839	inner ear development	0.0409692666526285
GO:0006576	biogenic amine metabolic process	0.0417875351795504
GO:0006310	DNA recombination	0.0419106468578885
GO:0005539	glycosaminoglycan binding	0.0419106468578885
GO:0048469	cell maturation	0.0419106468578885
GO:0043583	ear development	0.0423585509541974
GO:0044271	nitrogen compound biosynthetic process	0.0423585509541974
GO:0045177	apical part of cell	0.0425771180631387
GO:0042445	hormone metabolic process	0.0438181956187094
GO:0030247	polysaccharide binding	0.0438181956187094
GO:0045860	positive regulation of protein kinase activity	0.0438181956187094
GO:0003012	muscle system process	0.0438181956187094
GO:0006936	muscle contraction	0.0438181956187094
GO:0005249	voltage-gated potassium channel activity	0.0438181956187094
GO:0001871	pattern binding	0.0442068707507138
GO:0004519	endonuclease activity	0.0442068707507138
GO:0006575	amino acid derivative metabolic process	0.0449093739861729
GO:0033674	positive regulation of kinase activity	0.0450926938268783
GO:0051347	positive regulation of transferase activity	0.0452732925550205
GO:0021700	developmental maturation	0.045952462281696
GO:0007605	sensory perception of sound	0.046124155030082
GO:0048468	cell development	0.0463028947904052
GO:0009653	anatomical structure morphogenesis	0.0463028947904052
GO:0008015	blood circulation	0.0463028947904052
GO:0003013	circulatory system process	0.0463028947904052
GO:0050954	sensory perception of mechanical stimulus	0.0469461488761132
GO:0045165	cell fate commitment	0.0480569921767356
GO:0001654	eye development	0.0496252425198387
GO:0019842	vitamin binding	0.0497620568061787
GO:0016779	nucleotidyltransferase activity	0.049896969746898

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
bone marrow cell	6.64e-38	3
mesenchymal stem cell of the bone marrow	6.64e-38	3
central nervous system macrophage	3.19e-25	2
microglial cell	3.19e-25	2
cardiocyte	5.00e-18	3
striated muscle cell	5.00e-18	3
cardiac muscle cell	5.00e-18	3
cardiac muscle myoblast	5.00e-18	3
monopoietic cell	3.67e-13	4
myeloid leukocyte	3.67e-13	4
phagocyte	3.67e-13	4
monocyte	3.67e-13	4
macrophage	3.67e-13	4
tissue-resident macrophage	3.67e-13	4
macrophage dendritic cell progenitor	3.67e-13	4
monoblast	3.67e-13	4
promonocyte	3.67e-13	4
muscle precursor cell	1.61e-09	6
contractile cell	1.61e-09	6
muscle cell	1.61e-09	6
myoblast	1.61e-09	6
stuff accumulating cell	4.19e-09	6
mesodermal cell	2.72e-08	7
defensive cell	6.16e-08	7
granulocyte monocyte progenitor cell	6.16e-08	7
oligodendrocyte precursor cell	4.66e-07	8
connective tissue cell	5.09e-07	46
mesenchymal cell	5.09e-07	46
somatic stem cell	7.08e-07	91
multi fate stem cell	7.08e-07	91

Uber Anatomy

Ontology term	p-value	n
bone marrow	1.31e-19	16
musculoskeletal system	2.74e-19	32
bone element	2.25e-14	22
skeletal element	2.25e-14	22
skeletal system	2.25e-14	22
lateral plate mesoderm	3.43e-07	87
hematopoietic system	3.59e-07	45
blood island	3.59e-07	45
connective tissue	5.09e-07	46
hemolymphoid system	9.79e-07	48
immune system	9.79e-07	48

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)
{{{tfbs_overrepresentation_jaspar}}}