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MCL coexpression mm9:206: Difference between revisions

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{{MCL_coexpression_mm9
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acid metabolic process;0.0129926996099939;14275!GO:0006620;posttranslational protein targeting to membrane;0.0129926996099939;14275!GO:0008517;folic acid transporter activity;0.0129926996099939;14275!GO:0042744;hydrogen peroxide catabolic process;0.0129926996099939;14778!GO:0051183;vitamin transporter activity;0.0129926996099939;14275!GO:0051184;cofactor transporter activity;0.0129926996099939;14275!GO:0042743;hydrogen peroxide metabolic process;0.0129926996099939;14778!GO:0004602;glutathione peroxidase activity;0.0129926996099939;14778!GO:0042221;response to chemical stimulus;0.0129926996099939;110877,14778!GO:0042542;response to hydrogen peroxide;0.0129926996099939;14778!GO:0005542;folic acid binding;0.0129926996099939;14275!GO:0006760;folic acid and derivative metabolic process;0.0131002542059473;14275!GO:0042558;pteridine and derivative metabolic process;0.0132689330088039;14275!GO:0015893;drug transport;0.0132689330088039;110877!GO:0015238;drug transporter activity;0.0133362479456937;110877!GO:0000302;response to reactive oxygen species;0.0142872710132106;14778!GO:0045047;protein targeting to ER;0.0159655011936602;14275!GO:0006612;protein targeting to membrane;0.0204800353436179;14275!GO:0006800;oxygen and reactive oxygen species metabolic process;0.0204800353436179;14778!GO:0042493;response to drug;0.0204800353436179;110877!GO:0008430;selenium binding;0.0204800353436179;14778!GO:0004601;peroxidase activity;0.0204800353436179;14778!GO:0016684;oxidoreductase activity, acting on peroxide as acceptor;0.0204800353436179;14778!GO:0006767;water-soluble vitamin metabolic process;0.0231875628053499;14275!GO:0006979;response to oxidative stress;0.0256762365123254;14778!GO:0006836;neurotransmitter transport;0.0263302697303201;110877!GO:0006752;group transfer coenzyme metabolic process;0.0285150748081131;14275!GO:0006766;vitamin metabolic process;0.0315564122737057;14275!GO:0046483;heterocycle metabolic process;0.0324268387677364;14275!GO:0019842;vitamin 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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.754148036825443,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.251003064477134,0.0856562580541553,0.219861712554198,0.335774608412112,0.107200755467032,0,0,0,0,0.485448201724471,0.880257174399726,0.789349467957891,0,0,0,0,0,0,0,0.0153651893172923,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.106932678779961,0.132929080512768,0.115808975689988,0,0,0,0,0,0,0,0,0,0,0,0.611699654018457,0,0,0,0,0,0,0,0,0,0,0.688620184031399,0,0.0601091194109999,0,0,0,0,0.0482820047261801,0.0973729612719386,1.1568073573517,0.650344885042807,0,0.0651189800845078,0.0866592903778752,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0805105854221362,0.272038688372528,0.605593018412954,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.262095698625656,0.167037204238477,0.18757322340964,0.168347036942697,0.144115843815369,0.165185349104694,0.165857749845381,0.186545793286102,0.166448281439834,0.123564095038589,0.123307592435218,0.0945432472053936,0.111396940894494,0.158091042771083,0.186624607472909,0,0,0,0,0,0,0.0526429550379996,0.147171275172461,0.324671338850295,0.563855741902129,0,0.797292929426679,0.655012828985671,0.867267507571312,0.672496639443551,0,0,0.0214463049439484,0,0,0,0.148387507215387,0.249396484719475,0.417159995010195,0.724282795678014,1.22132751859654,1.21446964621664,1.31688300351769,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.284152233790825,0.0753613107413788,0,0,0,0.0672592169170953,0.169112038294096,0.295714018215793,0,0,0.0642538110976656,0.259908275861658,0.308801213670539,0.41349081906712,0,0,0,0.10582914506561,0,0,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0.232920019915626,0,0,0.174615154231399,0,0,0,0,0,0,0.180944521652268,0,0,0,0,0,0.225536506026914,0,0,0,0,0,0.00189279524403396,0.115432414129512,0.975348227056345,0.682413811162695,0.220522613690055,0.115533941342048,0,0,0,0,0.335643082588139,0,0.0685090053637401,0,0,0,0,0,0,0,0,0,0,0,0.0445418537893845,0.0824580172145032,0.0857765460992942,0.0427470022695567,0.034489466458534,0,0.0529304404135566,0,0,0,0,0,0.000112462123442986,0,0.0481920468563092,0,0,0,0.0446296904311925,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0373124733443448,0,0.0887572992187008,1.26610158217034,0.135547100918658,0.093988286860399,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0750453505157095,0.0745542549075041,0.0269518943326477,0.0690411384905589,0,0.0476191773904887,0.0764100460033047,0,0.0596387295197733,0,0.0709519923534245,0,0.0589368614163519,0.0390607415003592,0.0352754493378881,0.0729583017401753,0,0.0553034373508932,0,0.0486884105045233,0.0408018333703219,0,0.0625582350728301,0,0,0.101389297513264,0.155257708002722,0.140689222355642,0,0.0905641158318875
|gostat_on_MCL_coexpression=GO:0046655;folic acid metabolic process;0.0129926996099939;14275!GO:0006620;posttranslational protein targeting to membrane;0.0129926996099939;14275!GO:0008517;folic acid transporter activity;0.0129926996099939;14275!GO:0042744;hydrogen peroxide catabolic process;0.0129926996099939;14778!GO:0051183;vitamin transporter activity;0.0129926996099939;14275!GO:0051184;cofactor transporter activity;0.0129926996099939;14275!GO:0042743;hydrogen peroxide metabolic process;0.0129926996099939;14778!GO:0004602;glutathione peroxidase activity;0.0129926996099939;14778!GO:0042221;response to chemical stimulus;0.0129926996099939;110877,14778!GO:0042542;response to hydrogen peroxide;0.0129926996099939;14778!GO:0005542;folic acid binding;0.0129926996099939;14275!GO:0006760;folic acid and derivative metabolic process;0.0131002542059473;14275!GO:0042558;pteridine and derivative metabolic process;0.0132689330088039;14275!GO:0015893;drug transport;0.0132689330088039;110877!GO:0015238;drug transporter activity;0.0133362479456937;110877!GO:0000302;response to reactive oxygen species;0.0142872710132106;14778!GO:0045047;protein targeting to ER;0.0159655011936602;14275!GO:0006612;protein targeting to membrane;0.0204800353436179;14275!GO:0006800;oxygen and reactive oxygen species metabolic process;0.0204800353436179;14778!GO:0042493;response to drug;0.0204800353436179;110877!GO:0008430;selenium binding;0.0204800353436179;14778!GO:0004601;peroxidase activity;0.0204800353436179;14778!GO:0016684;oxidoreductase activity, acting on peroxide as acceptor;0.0204800353436179;14778!GO:0006767;water-soluble vitamin metabolic process;0.0231875628053499;14275!GO:0006979;response to oxidative stress;0.0256762365123254;14778!GO:0006836;neurotransmitter transport;0.0263302697303201;110877!GO:0006752;group transfer coenzyme metabolic process;0.0285150748081131;14275!GO:0006766;vitamin metabolic process;0.0315564122737057;14275!GO:0046483;heterocycle metabolic process;0.0324268387677364;14275!GO:0019842;vitamin binding;0.049761938506236;14275!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007100!1.31e-13!18;UBERON:0000948!1.31e-13!18;UBERON:0005498!1.31e-13!18;UBERON:0004140!1.31e-13!18;UBERON:0009881!1.31e-13!18;UBERON:0004141!1.31e-13!18;UBERON:0003084!1.31e-13!18;UBERON:0007005!1.31e-13!18;UBERON:0004139!1.31e-13!18;UBERON:0004291!1.31e-13!18;UBERON:0003103!7.94e-12!43;UBERON:0004535!7.82e-11!23;UBERON:0001009!7.82e-11!23;UBERON:0004872!8.71e-11!33;UBERON:0001008!2.44e-09!19;UBERON:0006554!7.07e-09!18
}}

Latest revision as of 14:53, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:54716245..54716271,+p1@ENSMUST00000082430
Mm9::chr11:54716419..54716434,+p1@Gpx3
Mm9::chr11:54717503..54717508,+p@chr11:54717503..54717508
+
Mm9::chr11:54720620..54720632,+p@chr11:54720620..54720632
+
Mm9::chr11:54720634..54720662,+p@chr11:54720634..54720662
+
Mm9::chr11:54720669..54720679,+p@chr11:54720669..54720679
+
Mm9::chr11:54720687..54720702,+p@chr11:54720687..54720702
+
Mm9::chr11:54720706..54720748,+p@chr11:54720706..54720748
+
Mm9::chr11:54720735..54720787,-p@chr11:54720735..54720787
-
Mm9::chr11:54722037..54722059,+p@chr11:54722037..54722059
+
Mm9::chr11:54722061..54722106,+p@chr11:54722061..54722106
+
Mm9::chr11:54722066..54722076,-p@chr11:54722066..54722076
-
Mm9::chr11:54722111..54722118,+p@chr11:54722111..54722118
+
Mm9::chr11:54722125..54722139,+p@chr11:54722125..54722139
+
Mm9::chr11:54722126..54722137,-p@chr11:54722126..54722137
-
Mm9::chr11:54722142..54722153,-p@chr11:54722142..54722153
-
Mm9::chr11:54722554..54722569,+p@chr11:54722554..54722569
+
Mm9::chr11:54722563..54722573,-p@chr11:54722563..54722573
-
Mm9::chr11:54722604..54722615,+p@chr11:54722604..54722615
+
Mm9::chr11:54722965..54722978,+p@chr11:54722965..54722978
+
Mm9::chr11:54723041..54723052,+p@chr11:54723041..54723052
+
Mm9::chr11:54723124..54723135,+p@chr11:54723124..54723135
+
Mm9::chr11:54723146..54723186,+p@chr11:54723146..54723186
+
Mm9::chr11:54723159..54723189,-p@chr11:54723159..54723189
-
Mm9::chr11:54723193..54723270,-p@chr11:54723193..54723270
-
Mm9::chr11:54723200..54723262,+p@chr11:54723200..54723262
+
Mm9::chr11:54723287..54723290,-p@chr11:54723287..54723290
-
Mm9::chr11:54723294..54723305,-p@chr11:54723294..54723305
-
Mm9::chr11:54723295..54723306,+p@chr11:54723295..54723306
+
Mm9::chr11:54723332..54723333,+p@chr11:54723332..54723333
+
Mm9::chr11:54723346..54723358,+p@chr11:54723346..54723358
+
Mm9::chr11:54723377..54723386,-p@chr11:54723377..54723386
-
Mm9::chr11:54723394..54723405,+p@chr11:54723394..54723405
+
Mm9::chr11:54723408..54723426,+p@chr11:54723408..54723426
+
Mm9::chr11:54723429..54723448,-p@chr11:54723429..54723448
-
Mm9::chr11:54723437..54723448,+p@chr11:54723437..54723448
+
Mm9::chr11:54723480..54723489,-p@chr11:54723480..54723489
-
Mm9::chr11:54723495..54723510,-p@chr11:54723495..54723510
-
Mm9::chr11:54723520..54723533,+p@chr11:54723520..54723533
+
Mm9::chr11:54723531..54723579,-p@chr11:54723531..54723579
-
Mm9::chr11:54723607..54723615,-p@chr11:54723607..54723615
-
Mm9::chr11:54723871..54723882,-p@chr11:54723871..54723882
-
Mm9::chr5:104224204..104224209,-p@chr5:104224204..104224209
-
Mm9::chr7:109017821..109017858,-p3@Folr1
Mm9::chr8:71613099..71613114,-p1@Slc18a1


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:0046655folic acid metabolic process0.0129926996099939
GO:0006620posttranslational protein targeting to membrane0.0129926996099939
GO:0008517folic acid transporter activity0.0129926996099939
GO:0042744hydrogen peroxide catabolic process0.0129926996099939
GO:0051183vitamin transporter activity0.0129926996099939
GO:0051184cofactor transporter activity0.0129926996099939
GO:0042743hydrogen peroxide metabolic process0.0129926996099939
GO:0004602glutathione peroxidase activity0.0129926996099939
GO:0042221response to chemical stimulus0.0129926996099939
GO:0042542response to hydrogen peroxide0.0129926996099939
GO:0005542folic acid binding0.0129926996099939
GO:0006760folic acid and derivative metabolic process0.0131002542059473
GO:0042558pteridine and derivative metabolic process0.0132689330088039
GO:0015893drug transport0.0132689330088039
GO:0015238drug transporter activity0.0133362479456937
GO:0000302response to reactive oxygen species0.0142872710132106
GO:0045047protein targeting to ER0.0159655011936602
GO:0006612protein targeting to membrane0.0204800353436179
GO:0006800oxygen and reactive oxygen species metabolic process0.0204800353436179
GO:0042493response to drug0.0204800353436179
GO:0008430selenium binding0.0204800353436179
GO:0004601peroxidase activity0.0204800353436179
GO:0016684oxidoreductase activity, acting on peroxide as acceptor0.0204800353436179
GO:0006767water-soluble vitamin metabolic process0.0231875628053499
GO:0006979response to oxidative stress0.0256762365123254
GO:0006836neurotransmitter transport0.0263302697303201
GO:0006752group transfer coenzyme metabolic process0.0285150748081131
GO:0006766vitamin metabolic process0.0315564122737057
GO:0046483heterocycle metabolic process0.0324268387677364
GO:0019842vitamin binding0.049761938506236



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><br>uberon_data<br><br>


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)
MA0003.10.00338059
MA0004.12.29507
MA0006.10.00589647
MA0007.10.125141
MA0009.11.30463
MA0014.11.47282e-06
MA0017.10.682494
MA0019.10.431774
MA0024.10.224081
MA0025.110.0976
MA0027.11.77047
MA0028.10.00680824
MA0029.10.209792
MA0030.10.214072
MA0031.13.15542
MA0038.10.287793
MA0040.10.26267
MA0041.10.396372
MA0042.10.608649
MA0043.10.324212
MA0046.10.764888
MA0048.16.72406e-05
MA0050.10.0454501
MA0051.10.0888408
MA0052.10.268372
MA0055.10.000837122
MA0056.10
MA0057.11.06442
MA0058.14.84175
MA0059.10.0164404
MA0060.10.0357542
MA0061.10.598813
MA0063.10
MA0066.10.0802142
MA0067.10.525402
MA0068.12.93713
MA0069.10.268613
MA0070.10.261756
MA0071.10.0451909
MA0072.10.710895
MA0073.10.671846
MA0074.10.0658239
MA0076.10.0106166
MA0077.10.24084
MA0078.10.104095
MA0081.10.0205896
MA0083.10.323614
MA0084.10.820891
MA0087.10.291598
MA0088.10.801574
MA0089.10
MA0090.10.797322
MA0091.10.0378873
MA0092.10.110074
MA0093.12.98939
MA0095.10
MA0098.10
MA0100.10.221405
MA0101.10.0811847
MA0103.10.473175
MA0105.10.120794
MA0106.10.107855
MA0107.10.701354
MA0108.20.152431
MA0109.10
MA0111.10.0292699
MA0113.10.0945181
MA0114.10.122857
MA0115.10.326328
MA0116.10.577014
MA0117.10.816738
MA0119.10.0180788
MA0122.10.849992
MA0124.10.480104
MA0125.11.07455
MA0130.10
MA0131.10.137159
MA0132.10
MA0133.10
MA0135.10.352071
MA0136.10.25625
MA0139.11.53702
MA0140.10.481281
MA0141.10.0121009
MA0142.10.182284
MA0143.10.102149
MA0144.10.602162
MA0145.10.0417674
MA0146.10.00246926
MA0147.10.00333186
MA0148.10.63066
MA0149.10.0189649
MA0062.20.000284525
MA0035.20.0631979
MA0039.20.0460818
MA0138.20.132863
MA0002.20.530331
MA0137.20.0117105
MA0104.20.00790456
MA0047.20.0845826
MA0112.20.297406
MA0065.22.16004
MA0150.10.546596
MA0151.10
MA0152.10.084629
MA0153.10.365019
MA0154.10.10788
MA0155.14.75379
MA0156.10.142544
MA0157.10.163022
MA0158.10
MA0159.10.705763
MA0160.10.0396114
MA0161.10
MA0162.11.55039e-08
MA0163.10.867997
MA0164.10.0737651
MA0080.20.128048
MA0018.20.0777335
MA0099.20.129496
MA0079.20.00158798
MA0102.20.870038
MA0258.10.0437629
MA0259.10.00277894
MA0442.10
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