MCL coexpression mm9:660

Phase1 CAGE Peaks

	Short description
Mm9::chr11:69843574..69843585,+	p16@Dlg4
Mm9::chr15:101388830..101388853,-	p@chr15:101388830..101388853 -
Mm9::chr16:65515435..65515440,-	p@chr16:65515435..65515440 -
Mm9::chr17:71435502..71435539,+	p@chr17:71435502..71435539 +
Mm9::chr1:72193472..72193482,-	p@chr1:72193472..72193482 -
Mm9::chr1:72193489..72193505,-	p@chr1:72193489..72193505 -
Mm9::chr2:157395240..157395251,-	p@chr2:157395240..157395251 -
Mm9::chr2:174153059..174153076,+	p13@Gnas
Mm9::chr2:174251791..174251796,+	p2@Th1l
Mm9::chr6:3713618..3713624,-	p1@Calcr
Mm9::chr7:119534709..119534724,+	p@chr7:119534709..119534724 +

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:0030316	osteoclast differentiation	0.00278899719243379
GO:0007189	G-protein signaling, adenylate cyclase activating pathway	0.00356662957471553
GO:0002573	myeloid leukocyte differentiation	0.00356662957471553
GO:0019897	extrinsic to plasma membrane	0.00356662957471553
GO:0007188	G-protein signaling, coupled to cAMP nucleotide second messenger	0.00356662957471553
GO:0007187	G-protein signaling, coupled to cyclic nucleotide second messenger	0.00356662957471553
GO:0019933	cAMP-mediated signaling	0.00356662957471553
GO:0019935	cyclic-nucleotide-mediated signaling	0.00356662957471553
GO:0019898	extrinsic to membrane	0.00380579321820146
GO:0030099	myeloid cell differentiation	0.00479373253711718
GO:0001503	ossification	0.00479373253711718
GO:0031214	biomineral formation	0.00479373253711718
GO:0031234	extrinsic to internal side of plasma membrane	0.00479373253711718
GO:0040032	post-embryonic body morphogenesis	0.00479373253711718
GO:0046849	bone remodeling	0.00509394126511799
GO:0048771	tissue remodeling	0.00639094300550725
GO:0019932	second-messenger-mediated signaling	0.00639094300550725
GO:0002521	leukocyte differentiation	0.00639094300550725
GO:0044460	flagellum part	0.00639094300550725
GO:0044442	microtubule-based flagellum part	0.00639094300550725
GO:0004948	calcitonin receptor activity	0.00639094300550725
GO:0001501	skeletal development	0.0105616541659634
GO:0045672	positive regulation of osteoclast differentiation	0.0116678601829111
GO:0030097	hemopoiesis	0.0128976887068827
GO:0010171	body morphogenesis	0.0129005470206413
GO:0016188	synaptic vesicle maturation	0.0129005470206413
GO:0048534	hemopoietic or lymphoid organ development	0.0134150987537201
GO:0048701	embryonic cranial skeleton morphogenesis	0.0134150987537201
GO:0002763	positive regulation of myeloid leukocyte differentiation	0.0134150987537201
GO:0009898	internal side of plasma membrane	0.0134150987537201
GO:0002520	immune system development	0.0138081472602439
GO:0045669	positive regulation of osteoblast differentiation	0.0138081472602439
GO:0042043	neurexin binding	0.0138081472602439
GO:0007191	dopamine receptor, adenylate cyclase activating pathway	0.0138081472602439
GO:0009886	post-embryonic morphogenesis	0.0144996312881903
GO:0048488	synaptic vesicle endocytosis	0.0144996312881903
GO:0001958	endochondral ossification	0.0144996312881903
GO:0009888	tissue development	0.0147190492066304
GO:0042220	response to cocaine	0.0147190492066304
GO:0030279	negative regulation of ossification	0.0147190492066304
GO:0014073	response to tropane	0.0147190492066304
GO:0048704	embryonic skeletal morphogenesis	0.0170588006539819
GO:0048169	regulation of long-term neuronal synaptic plasticity	0.0170588006539819
GO:0016050	vesicle organization and biogenesis	0.0170588006539819
GO:0014069	postsynaptic density	0.0170588006539819
GO:0045667	regulation of osteoblast differentiation	0.0170588006539819
GO:0032982	myosin filament	0.0170588006539819
GO:0045639	positive regulation of myeloid cell differentiation	0.0170588006539819
GO:0043488	regulation of mRNA stability	0.0170588006539819
GO:0005863	striated muscle thick filament	0.0170588006539819
GO:0046851	negative regulation of bone remodeling	0.0170588006539819
GO:0042995	cell projection	0.0170588006539819
GO:0035116	embryonic hindlimb morphogenesis	0.0170588006539819
GO:0005859	muscle myosin complex	0.0170588006539819
GO:0048168	regulation of neuronal synaptic plasticity	0.0170588006539819
GO:0043487	regulation of RNA stability	0.0176340456221715
GO:0045670	regulation of osteoclast differentiation	0.0176340456221715
GO:0016460	myosin II complex	0.0178672081809556
GO:0048706	embryonic skeletal development	0.0178672081809556
GO:0014070	response to organic cyclic substance	0.0178672081809556
GO:0043279	response to alkaloid	0.0180779318978345
GO:0007204	elevation of cytosolic calcium ion concentration	0.0180779318978345
GO:0051252	regulation of RNA metabolic process	0.0180779318978345
GO:0001633	secretin-like receptor activity	0.0182692766514566
GO:0002761	regulation of myeloid leukocyte differentiation	0.0182692766514566
GO:0007212	dopamine receptor signaling pathway	0.0182692766514566
GO:0042221	response to chemical stimulus	0.0187045269489132
GO:0051480	cytosolic calcium ion homeostasis	0.0187150020818881
GO:0005624	membrane fraction	0.0200895987969162
GO:0048167	regulation of synaptic plasticity	0.0200895987969162
GO:0048705	skeletal morphogenesis	0.0205315340201663
GO:0035137	hindlimb morphogenesis	0.0205315340201663
GO:0050803	regulation of synapse structure and activity	0.0205315340201663
GO:0048489	synaptic vesicle transport	0.0205315340201663
GO:0009434	microtubule-based flagellum	0.0205315340201663
GO:0001669	acrosome	0.0208654498178503
GO:0030278	regulation of ossification	0.0208654498178503
GO:0000267	cell fraction	0.0219201197674251
GO:0001649	osteoblast differentiation	0.0228718415783858
GO:0044430	cytoskeletal part	0.0230987240562656
GO:0051241	negative regulation of multicellular organismal process	0.0230987240562656
GO:0006941	striated muscle contraction	0.0230987240562656
GO:0046850	regulation of bone remodeling	0.0230987240562656
GO:0010033	response to organic substance	0.0230987240562656
GO:0042493	response to drug	0.0234803036591527
GO:0065007	biological regulation	0.0234803036591527
GO:0009791	post-embryonic development	0.023835075809622
GO:0005834	heterotrimeric G-protein complex	0.0250540014560574
GO:0032501	multicellular organismal process	0.0250540014560574
GO:0006112	energy reserve metabolic process	0.0257164125055754
GO:0045637	regulation of myeloid cell differentiation	0.0257164125055754
GO:0065008	regulation of biological quality	0.0277652728956135
GO:0019861	flagellum	0.0280268974902848
GO:0045597	positive regulation of cell differentiation	0.0326806139258294
GO:0051216	cartilage development	0.0337351525317492
GO:0019717	synaptosome	0.0360562520975677
GO:0002376	immune system process	0.0360562520975677
GO:0016459	myosin complex	0.0387958709503544
GO:0006874	cellular calcium ion homeostasis	0.0395436774545312
GO:0044446	intracellular organelle part	0.0395436774545312
GO:0044422	organelle part	0.0395436774545312
GO:0055074	calcium ion homeostasis	0.0398727348824259
GO:0030326	embryonic limb morphogenesis	0.0403792631809752
GO:0035113	embryonic appendage morphogenesis	0.0403792631809752
GO:0006875	cellular metal ion homeostasis	0.0411025309070273
GO:0030017	sarcomere	0.0411025309070273
GO:0015980	energy derivation by oxidation of organic compounds	0.0411025309070273
GO:0055065	metal ion homeostasis	0.0414087142460823
GO:0044463	cell projection part	0.0414087142460823
GO:0044449	contractile fiber part	0.0414087142460823
GO:0051094	positive regulation of developmental process	0.0414087142460823
GO:0005856	cytoskeleton	0.0439894213510667
GO:0030016	myofibril	0.0439894213510667
GO:0035107	appendage morphogenesis	0.0439894213510667
GO:0035108	limb morphogenesis	0.0439894213510667
GO:0043292	contractile fiber	0.0440124119882475
GO:0048519	negative regulation of biological process	0.0440124119882475
GO:0060173	limb development	0.0441743181315497
GO:0048736	appendage development	0.0441743181315497
GO:0003012	muscle system process	0.0456238660318506
GO:0006936	muscle contraction	0.0456238660318506
GO:0005200	structural constituent of cytoskeleton	0.047949518323782

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>disease_data<br>

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Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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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