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MCL coexpression mm9:73: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002107!5.35e-40!22;UBERON:0007499!5.35e-40!22;UBERON:0006925!5.35e-40!22;UBERON:0009497!5.35e-40!22;UBERON:0000015!5.35e-40!22;UBERON:0002423!5.35e-40!22;UBERON:0006235!5.35e-40!22;UBERON:0008835!5.35e-40!22;UBERON:0003894!5.35e-40!22;UBERON:0004161!5.35e-40!22;UBERON:0008836!5.35e-40!22;UBERON:0009854!3.26e-38!23;UBERON:0009856!3.26e-38!23;UBERON:0002365!4.54e-35!25;UBERON:0002330!4.54e-35!25;UBERON:0005256!5.78e-19!45;UBERON:0003914!4.19e-18!47;UBERON:0005172!2.58e-17!49;UBERON:0005173!2.58e-17!49;UBERON:0002417!2.58e-17!49;UBERON:0000916!2.58e-17!49;UBERON:0003929!2.75e-15!55;UBERON:0002368!6.64e-14!60;UBERON:0003104!1.18e-13!61;UBERON:0009142!1.18e-13!61;UBERON:0002530!9.86e-13!65;UBERON:0000490!1.61e-12!66;UBERON:0009569!1.61e-12!66;UBERON:0005911!6.46e-12!69;UBERON:0000949!2.31e-11!72;UBERON:0000466!3.11e-10!79;UBERON:0005177!3.11e-10!79;UBERON:0001041!4.35e-10!80;UBERON:0002100!8.26e-09!90
|ontology_enrichment_uberon=UBERON:0002107!5.35e-40!22;UBERON:0007499!5.35e-40!22;UBERON:0006925!5.35e-40!22;UBERON:0009497!5.35e-40!22;UBERON:0000015!5.35e-40!22;UBERON:0002423!5.35e-40!22;UBERON:0006235!5.35e-40!22;UBERON:0008835!5.35e-40!22;UBERON:0003894!5.35e-40!22;UBERON:0004161!5.35e-40!22;UBERON:0008836!5.35e-40!22;UBERON:0009854!3.26e-38!23;UBERON:0009856!3.26e-38!23;UBERON:0002365!4.54e-35!25;UBERON:0002330!4.54e-35!25;UBERON:0005256!5.78e-19!45;UBERON:0003914!4.19e-18!47;UBERON:0005172!2.58e-17!49;UBERON:0005173!2.58e-17!49;UBERON:0002417!2.58e-17!49;UBERON:0000916!2.58e-17!49;UBERON:0003929!2.75e-15!55;UBERON:0002368!6.64e-14!60;UBERON:0003104!1.18e-13!61;UBERON:0009142!1.18e-13!61;UBERON:0002530!9.86e-13!65;UBERON:0000490!1.61e-12!66;UBERON:0009569!1.61e-12!66;UBERON:0005911!6.46e-12!69;UBERON:0000949!2.31e-11!72;UBERON:0000466!3.11e-10!79;UBERON:0005177!3.11e-10!79;UBERON:0001041!4.35e-10!80;UBERON:0002100!8.26e-09!90
|tfbs_overrepresentation_for_novel_motifs=0.0255204,0.00182801,0.00226932,0.630273,0.214697,0.543098,0.056158,2.27741,0.0150207,0.00353222,0.000744383,1.22551,0.0104445,0.12627,0.728927,0,0.0282063,0.331214,0.327006,0.196591,0.927414,0.127047,0.0021956,1.00979,0.0649696,0.0887808,0.123714,0.0455404,0.013356,0.221197,0.0367288,1.20513,0.00235989,0.482039,1.98486e-05,0.00547202,6.5326e-05,0.018973,2.41131,5.33682e-05,0.35225,0.00640982,0.186277,1.88446,0.00313319,0.0441208,0.0989974,0.106661,1.72384,0.338419,0.164126,0.0550702,0.00761341,0.154349,0.0438964,0.135892,0.770842,0.0832299,0.340627,0.069197,0.15239,0.127408,0.891305,0.0665511,0.0126144,1.13377,0.621136,0.28203,0.299305,0.188438,0.00133981,1.10871,1.74594e-09,1.16639,4.42217e-09,0.0720343,0.0665641,0.472279,0.734617,0.7926,0.262688,0.00610228,0.986075,1.91886,0.0256205,0,0.401947,0.0110632,0.745303,0.401133,0.378903,0.270452,1.66798,0.638818,6.28405e-05,0.269865,0.271712,0.0731538,0.0408497,0.0138918,0.558671,0.572276,0.141051,0.302609,0.300575,0.00635488,0.00789867,0.265999,0.00780331,0.00251204,0.283568,0.142382,0.646072,0.0699066,0.387458,0.547222,3.2883e-05,0.0558281,0.0858036,0.529161,0.201778,1.46247,0.813545,0.676482,0.14918,0.0508634,0.324957,0.179031,0.297131,0.537497,0.883381,0.221208,0.265837,0.396804,1.33154,0.500322,0.159275,0.322567,0.718695,0.712915,0.376625,0.0908027,1.13116,0.600813,0.0691348,0.135423,0.198892,0.677386,2.2295,0.00149607,0.00766383,2.03634e-11,0.155579,0.0399098,0.394001,0.0633204,0.342389,0.999977,2.98162,0.00166965,0.113949,0.107975,1.82315,0.0423346,1.25667,1.50339,0.101489,0.967169,1.43803e-10
}}
}}

Revision as of 17:45, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:114799208..114799219,-p4@Tmem19
Mm9::chr10:127339015..127339036,+p4@Sdr9c7
Mm9::chr10:127339056..127339090,+p2@Sdr9c7
Mm9::chr10:127339097..127339112,+p5@Sdr9c7
Mm9::chr10:24635436..24635447,-p@chr10:24635436..24635447
-
Mm9::chr10:24635455..24635462,-p@chr10:24635455..24635462
-
Mm9::chr10:61534199..61534208,+p4@ENSMUST00000053865
Mm9::chr10:76039143..76039164,+p@chr10:76039143..76039164
+
Mm9::chr10:89094753..89094764,-p@chr10:89094753..89094764
-
Mm9::chr11:120391886..120391916,-p1@ENSMUST00000140989
Mm9::chr11:57906738..57906759,+p@chr11:57906738..57906759
+
Mm9::chr12:105133297..105133338,+p@chr12:105133297..105133338
+
Mm9::chr12:105240936..105240944,-p@chr12:105240936..105240944
-
Mm9::chr12:105271080..105271103,-p@chr12:105271080..105271103
-
Mm9::chr12:105316146..105316162,+p1@Serpina4-ps1
Mm9::chr12:105322384..105322395,+p@chr12:105322384..105322395
+
Mm9::chr12:105322430..105322441,+p@chr12:105322430..105322441
+
Mm9::chr12:105578720..105578731,+p@chr12:105578720..105578731
+
Mm9::chr12:105578737..105578775,+p@chr12:105578737..105578775
+
Mm9::chr12:105579064..105579080,+p@chr12:105579064..105579080
+
Mm9::chr12:105579079..105579119,-p@chr12:105579079..105579119
-
Mm9::chr12:105581274..105581282,+p@chr12:105581274..105581282
+
Mm9::chr12:105581310..105581323,-p@chr12:105581310..105581323
-
Mm9::chr12:105582342..105582354,+p@chr12:105582342..105582354
+
Mm9::chr12:105583499..105583521,+p@chr12:105583499..105583521
+
Mm9::chr12:105583672..105583681,+p@chr12:105583672..105583681
+
Mm9::chr12:82069774..82069786,-p5@Slc10a1
Mm9::chr13:109901240..109901248,+p@chr13:109901240..109901248
+
Mm9::chr13:85677919..85677921,-p@chr13:85677919..85677921
-
Mm9::chr14:51716090..51716098,+p4@Ang
p4@Rnase4
Mm9::chr14:51725051..51725082,-p@chr14:51725051..51725082
-
Mm9::chr14:51725088..51725102,-p@chr14:51725088..51725102
-
Mm9::chr14:56179897..56179908,+p8@Dcaf11
Mm9::chr14:57994925..57994930,-p@chr14:57994925..57994930
-
Mm9::chr14:76888344..76888348,+p26@Tsc22d1
Mm9::chr14:9091314..9091327,-p1@Acox2
Mm9::chr15:102019383..102019402,-p4@Csad
Mm9::chr15:4677175..4677201,+p2@C6
Mm9::chr15:4677202..4677230,+p1@C6
Mm9::chr15:4677265..4677282,+p3@C6
Mm9::chr15:54650539..54650542,-p@chr15:54650539..54650542
-
Mm9::chr15:6395320..6395353,+p1@C9
Mm9::chr15:77207340..77207349,-p@chr15:77207340..77207349
-
Mm9::chr15:81666310..81666336,+p@chr15:81666310..81666336
+
Mm9::chr15:82472465..82472482,-p1@Cyp2d13
Mm9::chr16:18408036..18408050,-p@chr16:18408036..18408050
-
Mm9::chr16:18413545..18413560,-p6@Comt
Mm9::chr16:24090118..24090132,-p@chr16:24090118..24090132
-
Mm9::chr16:24090145..24090186,-p@chr16:24090145..24090186
-
Mm9::chr16:78309785..78309796,+p@chr16:78309785..78309796
+
Mm9::chr16:78309797..78309809,+p@chr16:78309797..78309809
+
Mm9::chr17:30749503..30749522,-p2@Glo1
Mm9::chr17:34960381..34960396,-p2@C4a
Mm9::chr17:34960398..34960410,-p1@C4a
Mm9::chr17:80022153..80022163,+p@chr17:80022153..80022163
+
Mm9::chr17:85278509..85278533,-p@chr17:85278509..85278533
-
Mm9::chr18:12801838..12801904,+p2@Ttc39c
Mm9::chr18:12801922..12801933,+p6@Ttc39c
Mm9::chr18:80450013..80450025,+p8@Pqlc1
Mm9::chr19:23135939..23135954,+p@chr19:23135939..23135954
+
Mm9::chr19:23135960..23135971,+p@chr19:23135960..23135971
+
Mm9::chr19:23135974..23135986,+p@chr19:23135974..23135986
+
Mm9::chr19:23136055..23136083,+p@chr19:23136055..23136083
+
Mm9::chr19:23210577..23210587,+p@chr19:23210577..23210587
+
Mm9::chr19:36700488..36700525,-p1@ENSMUST00000129953
p1@ENSMUST00000147754
Mm9::chr19:36700535..36700551,-p2@ENSMUST00000147754
Mm9::chr19:4036712..4036740,-p@chr19:4036712..4036740
-
Mm9::chr19:4037910..4037933,-p1@Gstp1
Mm9::chr19:42132496..42132498,+p@chr19:42132496..42132498
+
Mm9::chr19:44469432..44469441,-p@chr19:44469432..44469441
-
Mm9::chr19:4558007..4558011,+p@chr19:4558007..4558011
+
Mm9::chr19:46206378..46206394,+p1@Elovl3
Mm9::chr1:141915445..141915459,-p2@Cfhr2
Mm9::chr1:173156297..173156312,-p@chr1:173156297..173156312
-
Mm9::chr1:182123289..182123311,-p@chr1:182123289..182123311
-
Mm9::chr1:193897894..193897917,-p@chr1:193897894..193897917
-
Mm9::chr1:193898203..193898234,-p@chr1:193898203..193898234
-
Mm9::chr1:58170010..58170028,+p1@Aox3
Mm9::chr1:67247541..67247544,+p@chr1:67247541..67247544
+
Mm9::chr1:67277336..67277361,+p4@uc007biz.1
Mm9::chr1:67277384..67277397,+p3@uc007biz.1
Mm9::chr1:89967328..89967335,+p4@Ugt1a9
Mm9::chr1:89967340..89967372,+p1@Ugt1a9
Mm9::chr1:89967379..89967388,+p3@Ugt1a9
Mm9::chr2:103294416..103294437,+p@chr2:103294416..103294437
+
Mm9::chr2:103297043..103297055,+p@chr2:103297043..103297055
+
Mm9::chr2:12799408..12799413,-p@chr2:12799408..12799413
-
Mm9::chr2:164269413..164269428,-p4@Sdc4
Mm9::chr2:172981939..172981950,+p@chr2:172981939..172981950
+
Mm9::chr2:25555559..25555562,+p1@Lcn13
Mm9::chr2:34922352..34922363,+p@chr2:34922352..34922363
+
Mm9::chr2:34924785..34924801,-p@chr2:34924785..34924801
-
Mm9::chr2:34956717..34956742,-p@chr2:34956717..34956742
-
Mm9::chr2:34957062..34957068,-p3@AI182371
Mm9::chr2:58595934..58595937,-p@chr2:58595934..58595937
-
Mm9::chr3:131006062..131006141,-p1@Cyp2u1
Mm9::chr3:14864241..14864258,+p@chr3:14864241..14864258
+
Mm9::chr3:14864287..14864341,+p@chr3:14864287..14864341
+
Mm9::chr3:14866801..14866844,+p@chr3:14866801..14866844
+
Mm9::chr3:14871745..14871804,-p@chr3:14871745..14871804
-
Mm9::chr3:14872020..14872031,+p@chr3:14872020..14872031
+
Mm9::chr3:14872045..14872068,+p@chr3:14872045..14872068
+
Mm9::chr3:14872151..14872154,+p@chr3:14872151..14872154
+
Mm9::chr3:14872201..14872210,+p@chr3:14872201..14872210
+
Mm9::chr3:14872293..14872298,+p@chr3:14872293..14872298
+
Mm9::chr3:14872320..14872339,+p@chr3:14872320..14872339
+
Mm9::chr3:14872461..14872478,+p@chr3:14872461..14872478
+
Mm9::chr3:14872519..14872537,-p@chr3:14872519..14872537
-
Mm9::chr3:18143267..18143276,-p3@Cyp7b1
Mm9::chr3:18143289..18143349,-p1@Cyp7b1
Mm9::chr3:67319548..67319576,-p3@Rarres1
Mm9::chr3:67319585..67319622,-p4@Rarres1
Mm9::chr3:67319626..67319659,-p6@Rarres1
Mm9::chr3:81772205..81772207,-p@chr3:81772205..81772207
-
Mm9::chr3:81778465..81778472,-p@chr3:81778465..81778472
-
Mm9::chr3:89097816..89097827,+p@chr3:89097816..89097827
+
Mm9::chr3:89199631..89199644,+p2@ENSMUST00000153969
Mm9::chr3:98449441..98449487,-p1@Hsd3b5
Mm9::chr3:98528477..98528500,-p1@Hsd3b2
Mm9::chr4:107791075..107791103,-p2@Scp2
Mm9::chr4:133109285..133109308,+p1@Nr0b2
Mm9::chr4:150061238..150061243,-p@chr4:150061238..150061243
-
Mm9::chr4:150155527..150155531,-p@chr4:150155527..150155531
-
Mm9::chr4:150240581..150240598,+p@chr4:150240581..150240598
+
Mm9::chr4:60083333..60083353,-p1@LOC100048885
p1@Mup7
Mm9::chr4:60736147..60736156,-p2@Mup10
p3@Mup12
Mm9::chr4:61811844..61811860,-p1@Mup21
Mm9::chr4:62811384..62811394,+p@chr4:62811384..62811394
+
Mm9::chr4:96302519..96302521,-p@chr4:96302519..96302521
-
Mm9::chr4:96325361..96325372,-p@chr4:96325361..96325372
-
Mm9::chr5:17511193..17511201,-p@chr5:17511193..17511201
-
Mm9::chr6:121815837..121815866,+p@chr6:121815837..121815866
+
Mm9::chr6:122086646..122086656,+p1@Gm10319
Mm9::chr6:138088865..138088881,+p4@Mgst1
Mm9::chr6:138104817..138104829,+p@chr6:138104817..138104829
+
Mm9::chr6:141895312..141895342,-p1@Slco1a1
Mm9::chr6:141895348..141895357,-p2@Slco1a1
Mm9::chr6:141895481..141895485,-p3@Slco1a1
Mm9::chr6:71151594..71151604,+p@chr6:71151594..71151604
+
Mm9::chr6:85815876..85815888,-p@chr6:85815876..85815888
-
Mm9::chr6:90490746..90490775,+p@chr6:90490746..90490775
+
Mm9::chr7:126775125..126775132,-p@chr7:126775125..126775132
-
Mm9::chr7:137232844..137232853,-p@chr7:137232844..137232853
-
Mm9::chr7:15031858..15031865,-p4@2810007J24Rik
Mm9::chr7:15031919..15031936,-p3@2810007J24Rik
Mm9::chr7:15032000..15032021,-p2@2810007J24Rik
Mm9::chr7:20277238..20277265,+p@chr7:20277238..20277265
+
Mm9::chr7:20277800..20277820,-p2@Apoc1
Mm9::chr7:27904967..27904985,+p1@Cyp2f2
Mm9::chr7:27906555..27906568,+p@chr7:27906555..27906568
+
Mm9::chr7:27906959..27906988,+p@chr7:27906959..27906988
+
Mm9::chr7:27909865..27909876,+p@chr7:27909865..27909876
+
Mm9::chr7:27909951..27909990,+p@chr7:27909951..27909990
+
Mm9::chr7:27914726..27914739,+p@chr7:27914726..27914739
+
Mm9::chr7:27914806..27914818,+p@chr7:27914806..27914818
+
Mm9::chr7:27916219..27916230,+p@chr7:27916219..27916230
+
Mm9::chr7:31145436..31145443,-p@chr7:31145436..31145443
-
Mm9::chr7:72948786..72948804,+p3@1810008I18Rik
Mm9::chr8:112516499..112516510,+p@chr8:112516499..112516510
+
Mm9::chr8:112521440..112521452,+p@chr8:112521440..112521452
+
Mm9::chr8:112522250..112522261,+p@chr8:112522250..112522261
+
Mm9::chr8:116654896..116654910,-p@chr8:116654896..116654910
-
Mm9::chr8:116655478..116655495,-p@chr8:116655478..116655495
-
Mm9::chr8:116655497..116655504,-p@chr8:116655497..116655504
-
Mm9::chr8:116657469..116657497,+p3@Nudt7
Mm9::chr8:124831140..124831168,+p@chr8:124831140..124831168
+
Mm9::chr8:126262334..126262337,+p@chr8:126262334..126262337
+
Mm9::chr8:36279581..36279587,+p@chr8:36279581..36279587
+
Mm9::chr8:41739033..41739078,-p@chr8:41739033..41739078
-
Mm9::chr8:46395634..46395639,-p@chr8:46395634..46395639
-
Mm9::chr8:58707952..58707959,-p@chr8:58707952..58707959
-
Mm9::chr8:64088205..64088211,+p@chr8:64088205..64088211
+
Mm9::chr8:87166739..87166747,-p@chr8:87166739..87166747
-
Mm9::chr8:87417176..87417232,-p4@Gcdh
Mm9::chr8:95753416..95753510,-p1@Ces1e
Mm9::chr8:96887929..96887935,-p@chr8:96887929..96887935
-
Mm9::chr9:46077152..46077167,+p2@Apoa5
Mm9::chr9:57529829..57529839,-p@chr9:57529829..57529839
-
Mm9::chr9:96867006..96867032,-p@chr9:96867006..96867032
-


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

GO IDGO nameFDR corrected p-value
GO:0000267cell fraction0.00123843901423085
GO:0005792microsome0.00123843901423085
GO:0016491oxidoreductase activity0.00123843901423085
GO:0042598vesicular fraction0.00123843901423085
GO:0005624membrane fraction0.0016548405676883
GO:0006118electron transport0.00191574530361692
GO:0005783endoplasmic reticulum0.00220420939280607
GO:0004497monooxygenase activity0.00387858162515104
GO:0004769steroid delta-isomerase activity0.00387858162515104
GO:00038543-beta-hydroxy-delta5-steroid dehydrogenase activity0.00387858162515104
GO:0006091generation of precursor metabolites and energy0.00451027381529529
GO:0015711organic anion transport0.00632526225768357
GO:0006790sulfur metabolic process0.00633477916134919
GO:0005506iron ion binding0.00691439762681614
GO:0006694steroid biosynthetic process0.00781990092403807
GO:0006700C21-steroid hormone biosynthetic process0.00781990092403807
GO:0044255cellular lipid metabolic process0.00914346326497351
GO:0003995acyl-CoA dehydrogenase activity0.00914346326497351
GO:0008207C21-steroid hormone metabolic process0.00931476838930189
GO:0016863intramolecular oxidoreductase activity, transposing C



Relative expression of the co-expression cluster over median <br>Analyst:




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>

Cell Type
Ontology termp-valuen
metabolising cell1.55e-215
endopolyploid cell1.55e-215
parenchymal cell1.55e-215
polyploid cell1.55e-215
hepatocyte1.55e-215
fibroblast8.50e-081
hepatic stellate cell8.50e-081

Uber Anatomy
Ontology termp-valuen
liver5.35e-4022
epithelial sac5.35e-4022
digestive gland5.35e-4022
epithelium of foregut-midgut junction5.35e-4022
anatomical boundary5.35e-4022
hepatobiliary system5.35e-4022
foregut-midgut junction5.35e-4022
hepatic diverticulum5.35e-4022
liver primordium5.35e-4022
septum transversum5.35e-4022
liver bud5.35e-4022
digestive tract diverticulum3.26e-3823
sac3.26e-3823
exocrine gland4.54e-3525
exocrine system4.54e-3525
trunk mesenchyme5.78e-1945
epithelial tube4.19e-1847
abdomen element2.58e-1749
abdominal segment element2.58e-1749
abdominal segment of trunk2.58e-1749
abdomen2.58e-1749
gut epithelium2.75e-1555
endocrine gland6.64e-1460
mesenchyme1.18e-1361
entire embryonic mesenchyme1.18e-1361
gland9.86e-1365
unilaminar epithelium1.61e-1266
subdivision of trunk1.61e-1266
endo-epithelium6.46e-1269
endocrine system2.31e-1172
immaterial anatomical entity3.11e-1079
trunk region element3.11e-1079
foregut4.35e-1080
trunk8.26e-0990


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

Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}

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