MCL coexpression mm9:3102

Phase1 CAGE Peaks

	Short description
Mm9::chr17:46169315..46169332,-	p1@Vegfa
Mm9::chr17:87153440..87153451,+	p4@Epas1
Mm9::chr17:87153462..87153473,+	p3@Epas1

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:0048875	chemical homeostasis within a tissue	4.03417333827088e-06
GO:0043129	surfactant homeostasis	4.03417333827088e-06
GO:0001894	tissue homeostasis	0.000109258861244836
GO:0048871	multicellular organismal homeostasis	0.000109258861244836
GO:0030324	lung development	0.0004661711413113
GO:0030323	respiratory tube development	0.0004661711413113
GO:0048469	cell maturation	0.000518871532698554
GO:0021700	developmental maturation	0.000688330825842467
GO:0001525	angiogenesis	0.00135144806832074
GO:0048514	blood vessel morphogenesis	0.00200068103089314
GO:0048646	anatomical structure formation	0.00202813261994261
GO:0035295	tube development	0.00202813261994261
GO:0001568	blood vessel development	0.00202813261994261
GO:0001944	vasculature development	0.00202813261994261
GO:0043618	regulation of transcription from RNA polymerase II promoter in response to stress	0.00306790477847712
GO:0043619	regulation of transcription from RNA polymerase II promoter in response to oxidative stress	0.00306790477847712
GO:0042592	homeostatic process	0.00409042764426564
GO:0043620	regulation of transcription in response to stress	0.00409042764426564
GO:0001938	positive regulation of endothelial cell proliferation	0.00516671442176228
GO:0042415	norepinephrine metabolic process	0.00613530528528696
GO:0009790	embryonic development	0.00638302273860601
GO:0001936	regulation of endothelial cell proliferation	0.00669287693970676
GO:0009887	organ morphogenesis	0.0072353775816092
GO:0001935	endothelial cell proliferation	0.00817951056408521
GO:0010464	regulation of mesenchymal cell proliferation	0.00817951056408521
GO:0002053	positive regulation of mesenchymal cell proliferation	0.00817951056408521
GO:0010463	mesenchymal cell proliferation	0.00817951056408521
GO:0002027	regulation of heart rate	0.00861296007720831
GO:0065008	regulation of biological quality	0.00861296007720831
GO:0001892	embryonic placenta development	0.00899696855486349
GO:0042462	eye photoreceptor cell development	0.0105147846509646
GO:0048010	vascular endothelial growth factor receptor signaling pathway	0.0105147846509646
GO:0048522	positive regulation of cellular process	0.0105147846509646
GO:0050679	positive regulation of epithelial cell proliferation	0.0105147846509646
GO:0001974	blood vessel remodeling	0.0105147846509646
GO:0001754	eye photoreceptor cell differentiation	0.0109039222918641
GO:0033554	cellular response to stress	0.0109753578291056
GO:0042461	photoreceptor cell development	0.0109753578291056
GO:0048593	camera-type eye morphogenesis	0.0110396161945117
GO:0001541	ovarian follicle development	0.0110396161945117
GO:0048518	positive regulation of biological process	0.0112837140197725
GO:0051716	cellular response to stimulus	0.0116814931941915
GO:0046530	photoreceptor cell differentiation	0.0117077211422082
GO:0001666	response to hypoxia	0.0117077211422082
GO:0001569	patterning of blood vessels	0.0119923422585296
GO:0050678	regulation of epithelial cell proliferation	0.01279745022204
GO:0001890	placenta development	0.0140896508010745
GO:0018958	phenol metabolic process	0.0142245489797209
GO:0022601	menstrual cycle phase	0.0142245489797209
GO:0006584	catecholamine metabolic process	0.0142245489797209
GO:0022602	menstrual cycle process	0.0144261247562186
GO:0050673	epithelial cell proliferation	0.0146199217581502
GO:0048468	cell development	0.0148726082844325
GO:0009653	anatomical structure morphogenesis	0.0148726082844325
GO:0008585	female gonad development	0.0148726082844325
GO:0008016	regulation of heart contraction	0.0148726082844325
GO:0046545	development of primary female sexual characteristics	0.0148726082844325
GO:0030855	epithelial cell differentiation	0.0148726082844325
GO:0046660	female sex differentiation	0.0148726082844325
GO:0042133	neurotransmitter metabolic process	0.0148726082844325
GO:0030218	erythrocyte differentiation	0.0148726082844325
GO:0009880	embryonic pattern specification	0.0155667863259309
GO:0042698	menstrual cycle	0.0155667863259309
GO:0048592	eye morphogenesis	0.0163433326762993
GO:0003015	heart process	0.0163433326762993
GO:0060047	heart contraction	0.0163433326762993
GO:0006979	response to oxidative stress	0.0164648462589577
GO:0048513	organ development	0.0172936112099897
GO:0007498	mesoderm development	0.0174068148255559
GO:0008406	gonad development	0.0178574988060467
GO:0048608	reproductive structure development	0.0182954117040198
GO:0048754	branching morphogenesis of a tube	0.01947019157141
GO:0045137	development of primary sexual characteristics	0.01947019157141
GO:0008201	heparin binding	0.0195377013687176
GO:0046982	protein heterodimerization activity	0.0196033929751042
GO:0001763	morphogenesis of a branching structure	0.0203110542148593
GO:0007005	mitochondrion organization and biogenesis	0.0213177769322386
GO:0048609	reproductive process in a multicellular organism	0.0218387624449888
GO:0032504	multicellular organism reproduction	0.0218387624449888
GO:0006576	biogenic amine metabolic process	0.0218387624449888
GO:0007548	sex differentiation	0.0218387624449888
GO:0048731	system development	0.0218387624449888
GO:0005539	glycosaminoglycan binding	0.0218387624449888
GO:0043010	camera-type eye development	0.0218697819513702
GO:0048869	cellular developmental process	0.0219584691782932
GO:0030154	cell differentiation	0.0219584691782932
GO:0006916	anti-apoptosis	0.0219584691782932
GO:0042445	hormone metabolic process	0.0222887623661562
GO:0030247	polysaccharide binding	0.0222887623661562
GO:0001871	pattern binding	0.0231270192653428
GO:0003006	reproductive developmental process	0.0231413334383844
GO:0006575	amino acid derivative metabolic process	0.023155321817181
GO:0001505	regulation of neurotransmitter levels	0.0231689949112246
GO:0030099	myeloid cell differentiation	0.0239618165718334
GO:0008015	blood circulation	0.0242257011604375
GO:0003013	circulatory system process	0.0242257011604375
GO:0048856	anatomical structure development	0.0251152382588263
GO:0001654	eye development	0.0259731056860296
GO:0007601	visual perception	0.0271616453275106
GO:0050953	sensory perception of light stimulus	0.0271616453275106
GO:0006725	aromatic compound metabolic process	0.0273757671324719
GO:0001701	in utero embryonic development	0.0285420004890074
GO:0048771	tissue remodeling	0.0287383541933614
GO:0002009	morphogenesis of an epithelium	0.0289308801447683
GO:0007275	multicellular organismal development	0.0290654504882724
GO:0016043	cellular component organization and biogenesis	0.0334148233593887
GO:0035239	tube morphogenesis	0.0334148233593887
GO:0008083	growth factor activity	0.0334148233593887
GO:0043066	negative regulation of apoptosis	0.0334148233593887
GO:0043069	negative regulation of programmed cell death	0.0335536499522187
GO:0007169	transmembrane receptor protein tyrosine kinase signaling pathway	0.0358820092731061
GO:0008284	positive regulation of cell proliferation	0.0383841027444397
GO:0000904	cellular morphogenesis during differentiation	0.0397071754564827
GO:0007423	sensory organ development	0.0397071754564827
GO:0008134	transcription factor binding	0.0397071754564827
GO:0007268	synaptic transmission	0.0399930903851556
GO:0045944	positive regulation of transcription from RNA polymerase II promoter	0.040961594372507
GO:0046983	protein dimerization activity	0.040961594372507
GO:0022414	reproductive process	0.0422491741585634
GO:0030097	hemopoiesis	0.0423015347904407
GO:0032502	developmental process	0.0436736049305149
GO:0043009	chordate embryonic development	0.0441927376156917
GO:0009792	embryonic development ending in birth or egg hatching	0.0442620389251412
GO:0019226	transmission of nerve impulse	0.0442620389251412
GO:0048534	hemopoietic or lymphoid organ development	0.0452652321650547
GO:0007389	pattern specification process	0.0452906074995594
GO:0045893	positive regulation of transcription, DNA-dependent	0.0453155408689713
GO:0002520	immune system development	0.0474212033197068
GO:0006066	alcohol metabolic process	0.0479918290596343
GO:0030246	carbohydrate binding	0.0494754610980777
GO:0007167	enzyme linked receptor protein signaling pathway	0.0494754610980777

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><br>uberon_data<br><br>

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Uber Anatomy

Ontology term	p-value	n
subdivision of trunk	2.51e-08	66
trunk region element	3.02e-08	79
trunk	9.05e-07	90

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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