MCL coexpression mm9:259

Phase1 CAGE Peaks

	Short description
Mm9::chr10:127188729..127188740,-	p3@Gpr182
Mm9::chr10:127188763..127188793,-	p1@Gpr182
Mm9::chr10:127188795..127188807,-	p2@Gpr182
Mm9::chr10:58904456..58904461,-	p6@Oit3
Mm9::chr10:58904496..58904530,-	p1@Oit3
Mm9::chr10:58904532..58904548,-	p3@Oit3
Mm9::chr10:86470760..86470776,-	p1@Stab2
Mm9::chr11:101108238..101108249,+	p7@Ramp2
Mm9::chr11:101108274..101108295,+	p4@Ramp2
Mm9::chr14:73637960..73637972,+	p3@Lpar6
Mm9::chr14:8800226..8800241,-	p@chr14:8800226..8800241 -
Mm9::chr14:8826519..8826534,-	p1@Dnase1l3
Mm9::chr14:8826705..8826731,-	p2@Dnase1l3
Mm9::chr14:8826736..8826741,-	p7@Dnase1l3
Mm9::chr17:26145823..26145867,-	p@chr17:26145823..26145867 -
Mm9::chr17:74154223..74154241,+	p1@Ehd3
Mm9::chr19:57349285..57349290,-	p@chr19:57349285..57349290 -
Mm9::chr1:172906175..172906237,-	p1@Fcgr2b
Mm9::chr1:172906243..172906251,-	p4@Fcgr2b
Mm9::chr1:45984844..45984854,-	p@chr1:45984844..45984854 -
Mm9::chr2:14151017..14151031,+	p1@Mrc1
Mm9::chr3:129236571..129236575,+	p@chr3:129236571..129236575 +
Mm9::chr4:129255756..129255761,-	p3@Fam167b
Mm9::chr4:86490683..86490694,+	p12@Dennd4c
Mm9::chr6:129347496..129347516,+	p1@Clec1b
Mm9::chr6:23048067..23048077,-	p@chr6:23048067..23048077 -
Mm9::chr6:23048089..23048097,-	p@chr6:23048089..23048097 -
Mm9::chr6:23048103..23048116,-	p@chr6:23048103..23048116 -
Mm9::chr7:105233983..105234029,-	p@chr7:105233983..105234029 -
Mm9::chr8:3720640..3720682,-	p1@Clec4g
Mm9::chr8:40721510..40721528,+	p@chr8:40721510..40721528 +
Mm9::chr8:40721546..40721559,+	p@chr8:40721546..40721559 +

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:0030246	carbohydrate binding	0.00191584833239487
GO:0010324	membrane invagination	0.00657334377428434
GO:0006897	endocytosis	0.00657334377428434
GO:0005529	sugar binding	0.00666741606348981
GO:0016044	membrane organization and biogenesis	0.010377638772252
GO:0002713	negative regulation of B cell mediated immunity	0.0141299554327411
GO:0001811	negative regulation of type I hypersensitivity	0.0141299554327411
GO:0002890	negative regulation of immunoglobulin mediated immune response	0.0141299554327411
GO:0005509	calcium ion binding	0.0141299554327411
GO:0002704	negative regulation of leukocyte mediated immunity	0.0158313286891551
GO:0002865	negative regulation of acute inflammatory response to antigenic stimulus	0.0158313286891551
GO:0002862	negative regulation of inflammatory response to antigenic stimulus	0.0158313286891551
GO:0002884	negative regulation of hypersensitivity	0.0158313286891551
GO:0002674	negative regulation of acute inflammatory response	0.0158313286891551
GO:0002707	negative regulation of lymphocyte mediated immunity	0.0158313286891551
GO:0016192	vesicle-mediated transport	0.0158313286891551
GO:0004872	receptor activity	0.0195047244678391
GO:0002698	negative regulation of immune effector process	0.0205344390387834
GO:0004871	signal transducer activity	0.0234621448798781
GO:0060089	molecular transducer activity	0.0234621448798781
GO:0015027	coreceptor, soluble ligand activity	0.0234621448798781
GO:0002820	negative regulation of adaptive immune response	0.0256553949754007
GO:0019864	IgG binding	0.0256553949754007
GO:0002823	negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.0256553949754007
GO:0050777	negative regulation of immune response	0.0284112784656538
GO:0002683	negative regulation of immune system process	0.0284112784656538
GO:0006309	DNA fragmentation during apoptosis	0.0298314799756331
GO:0015026	coreceptor activity	0.0298314799756331
GO:0009986	cell surface	0.0298314799756331
GO:0001810	regulation of type I hypersensitivity	0.0298314799756331
GO:0006921	cell structure disassembly during apoptosis	0.0298314799756331
GO:0030889	negative regulation of B cell proliferation	0.0298314799756331
GO:0016068	type I hypersensitivity	0.0298314799756331
GO:0016043	cellular component organization and biogenesis	0.0307561314100322
GO:0030262	apoptotic nuclear changes	0.0307561314100322
GO:0019865	immunoglobulin binding	0.0307561314100322
GO:0050869	negative regulation of B cell activation	0.0313872998376249
GO:0031348	negative regulation of defense response	0.0313872998376249
GO:0050728	negative regulation of inflammatory response	0.0313872998376249
GO:0002889	regulation of immunoglobulin mediated immune response	0.0313872998376249
GO:0002883	regulation of hypersensitivity	0.0313872998376249
GO:0002673	regulation of acute inflammatory response	0.0313872998376249
GO:0002712	regulation of B cell mediated immunity	0.0313872998376249
GO:0002438	acute inflammatory response to antigenic stimulus	0.0313872998376249
GO:0002864	regulation of acute inflammatory response to antigenic stimulus	0.0313872998376249
GO:0002524	hypersensitivity	0.0313872998376249
GO:0005537	mannose binding	0.0313872998376249
GO:0006308	DNA catabolic process	0.0326069972186087
GO:0030139	endocytic vesicle	0.0326069972186087
GO:0002861	regulation of inflammatory response to antigenic stimulus	0.0330811956029298
GO:0002437	inflammatory response to antigenic stimulus	0.0330811956029298
GO:0006911	phagocytosis, engulfment	0.0330811956029298
GO:0002495	antigen processing and presentation of peptide antigen via MHC class II	0.0344736754666101
GO:0050766	positive regulation of phagocytosis	0.0344736754666101
GO:0050764	regulation of phagocytosis	0.0344736754666101
GO:0005540	hyaluronic acid binding	0.0344736754666101
GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II	0.0344736754666101
GO:0002703	regulation of leukocyte mediated immunity	0.0353289800284238
GO:0002706	regulation of lymphocyte mediated immunity	0.0353289800284238
GO:0002478	antigen processing and presentation of exogenous peptide antigen	0.0353289800284238
GO:0008277	regulation of G-protein coupled receptor protein signaling pathway	0.0353289800284238
GO:0004536	deoxyribonuclease activity	0.0353289800284238
GO:0002504	antigen processing and presentation of peptide or polysaccharide antigen via MHC class II	0.0353289800284238
GO:0002697	regulation of immune effector process	0.0353289800284238
GO:0050672	negative regulation of lymphocyte proliferation	0.0353289800284238
GO:0032945	negative regulation of mononuclear cell proliferation	0.0353289800284238
GO:0045807	positive regulation of endocytosis	0.0373316893855504
GO:0048029	monosaccharide binding	0.0373316893855504
GO:0030888	regulation of B cell proliferation	0.0373316893855504
GO:0022411	cellular component disassembly	0.0374705988820493
GO:0002819	regulation of adaptive immune response	0.0374705988820493
GO:0002822	regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains.	0.0374705988820493
GO:0019884	antigen processing and presentation of exogenous antigen	0.0386276636442263
GO:0016021	integral to membrane	0.038785723061121
GO:0031224	intrinsic to membrane	0.0388722406608826
GO:0051250	negative regulation of lymphocyte activation	0.0403093622187683
GO:0006997	nuclear organization and biogenesis	0.0413671082796243
GO:0042100	B cell proliferation	0.0423969618808694
GO:0031347	regulation of defense response	0.0438293105113802
GO:0051241	negative regulation of multicellular organismal process	0.0438293105113802
GO:0050727	regulation of inflammatory response	0.0438293105113802
GO:0051050	positive regulation of transport	0.0492180015186909
GO:0048002	antigen processing and presentation of peptide antigen	0.0494899013562665
GO:0030100	regulation of endocytosis	0.0494899013562665

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
abdomen element	1.41e-26	49
abdominal segment element	1.41e-26	49
abdominal segment of trunk	1.41e-26	49
abdomen	1.41e-26	49
subdivision of trunk	1.63e-26	66
trunk region element	1.66e-21	79
liver	5.08e-20	22
epithelial sac	5.08e-20	22
digestive gland	5.08e-20	22
epithelium of foregut-midgut junction	5.08e-20	22
anatomical boundary	5.08e-20	22
hepatobiliary system	5.08e-20	22
foregut-midgut junction	5.08e-20	22
hepatic diverticulum	5.08e-20	22
liver primordium	5.08e-20	22
septum transversum	5.08e-20	22
liver bud	5.08e-20	22
digestive tract diverticulum	9.55e-19	23
sac	9.55e-19	23
trunk	1.49e-16	90
exocrine gland	1.62e-16	25
exocrine system	1.62e-16	25
mesenchyme	1.23e-12	61
entire embryonic mesenchyme	1.23e-12	61
trunk mesenchyme	1.74e-12	45
immaterial anatomical entity	8.84e-11	79
foregut	1.75e-09	80
endocrine gland	1.11e-07	60
epithelial tube	7.93e-07	47

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)
MA0003.1	0.000273009
MA0004.1	0.075713
MA0006.1	0.0915448
MA0007.1	0.244089
MA0009.1	0.93858
MA0014.1	0.000178993
MA0017.1	0.0269173
MA0019.1	0.221321
MA0024.1	0.322453
MA0025.1	0.553002
MA0027.1	1.91746
MA0028.1	0.0230932
MA0029.1	1.49459
MA0030.1	0.31081
MA0031.1	0.775496
MA0038.1	0.458648
MA0040.1	0.366712
MA0041.1	1.08417
MA0042.1	0.371303
MA0043.1	0.435645
MA0046.1	0.385571
MA0048.1	0.364526
MA0050.1	0.0934518
MA0051.1	0.919013
MA0052.1	0.373177
MA0055.1	0.263203
MA0056.1	0
MA0057.1	0.105905
MA0058.1	0.156036
MA0059.1	0.168372
MA0060.1	0.00783438
MA0061.1	1.1237
MA0063.1	0
MA0066.1	0.143893
MA0067.1	0.652366
MA0068.1	0.332026
MA0069.1	0.373449
MA0070.1	0.95833
MA0071.1	0.310039
MA0072.1	1.68257
MA0073.1	2.06736
MA0074.1	0.391044
MA0076.1	0.0318933
MA0077.1	0.341791
MA0078.1	1.00244
MA0081.1	1.1495
MA0083.1	1.10972
MA0084.1	0.958921
MA0087.1	1.82231
MA0088.1	0.0953438
MA0089.1	0
MA0090.1	0.481928
MA0091.1	0.278396
MA0092.1	0.221993
MA0093.1	0.106412
MA0095.1	0
MA0098.1	0
MA0100.1	0.117472
MA0101.1	1.0896
MA0103.1	0.537896
MA0105.1	0.045687
MA0106.1	0.533809
MA0107.1	0.5206
MA0108.2	0.667582
MA0109.1	0
MA0111.1	0.238061
MA0113.1	0.163276
MA0114.1	0.0558215
MA0115.1	0.437985
MA0116.1	0.0207662
MA0117.1	0.411186
MA0119.1	0.0470913
MA0122.1	0.427622
MA0124.1	0.604388
MA0125.1	0.538769
MA0130.1	0
MA0131.1	0.218222
MA0132.1	0
MA0133.1	0
MA0135.1	0.466327
MA0136.1	0.830118
MA0139.1	0.327748
MA0140.1	0.753767
MA0141.1	0.594391
MA0142.1	0.27329
MA0143.1	0.173388
MA0144.1	0.52834
MA0145.1	0.831393
MA0146.1	9.16865e-05
MA0147.1	0.172105
MA0148.1	0.59177
MA0149.1	0.723587
MA0062.2	0.224697
MA0035.2	0.381271
MA0039.2	0.00229661
MA0138.2	1.14854
MA0002.2	0.536373
MA0137.2	0.322137
MA0104.2	0.213989
MA0047.2	0.149878
MA0112.2	0.00815422
MA0065.2	0.310259
MA0150.1	0.243955
MA0151.1	0
MA0152.1	0.457674
MA0153.1	0.480495
MA0154.1	0.525513
MA0155.1	0.246781
MA0156.1	0.884499
MA0157.1	0.250083
MA0158.1	0
MA0159.1	0.0719173
MA0160.1	0.286048
MA0161.1	0
MA0162.1	0.000192406
MA0163.1	0.0532537
MA0164.1	2.61869
MA0080.2	0.833803
MA0018.2	0.140467
MA0099.2	0.208596
MA0079.2	0.0149496
MA0102.2	1.0092
MA0258.1	0.133343
MA0259.1	0.0586005
MA0442.1	0