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MCL coexpression mm9:104: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0008272;sulfate transport;0.0398153728154276;246221,13487!GO:0016614;oxidoreductase activity, acting on CH-OH group of donors;0.0398153728154276;56185,107605,22235!GO:0004184;lysine carboxypeptidase activity;0.0398153728154276;93721!GO:0016784;3-mercaptopyruvate sulfurtransferase activity;0.0398153728154276;246221!GO:0015169;glycerol-3-phosphate transmembrane transporter activity;0.0398153728154276;224674!GO:0006127;glycerophosphate shuttle;0.0398153728154276;224674!GO:0015794;glycerol-3-phosphate transport;0.0398153728154276;224674!GO:0003979;UDP-glucose 6-dehydrogenase activity;0.0398153728154276;22235!GO:0015168;glycerol transmembrane transporter activity;0.0398153728154276;224674!GO:0015665;alcohol transmembrane transporter activity;0.0398153728154276;224674!GO:0015793;glycerol transport;0.0398153728154276;224674!GO:0015166;polyol transmembrane transporter activity;0.0398153728154276;224674!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!1.33e-18!31;UBERON:0005409!5.58e-15!47;UBERON:0000331!1.42e-10!3;UBERON:0002116!1.42e-10!3;UBERON:0001204!1.42e-10!3;UBERON:0001168!1.42e-10!3;UBERON:0001153!4.39e-09!1;UBERON:0001045!4.39e-09!1;UBERON:0002108!3.73e-08!4;UBERON:0001007!9.36e-07!116;UBERON:0001555!9.36e-07!116;UBERON:0007026!9.36e-07!116
|tfbs_overrepresentation_for_novel_motifs=0.0153203,0.169559,0.0095596,1.4304,0.293011,0.992813,0.0410009,0.728771,0.441684,0.0459246,0.132137,0.470421,0.0728755,0.0467364,0.363968,0,0.0820509,0.476037,0.853399,0.219387,0.676697,0.0741,0.110495,0.656819,0.028473,0.0614847,0.183329,0.0172094,0.035259,0.163188,0.162823,0.346968,0.116794,1.09857,0.000216455,0.0345086,0.0173579,0.0855816,0.302061,0.129338,0.277116,0.0420946,0.0865053,0.373044,0.040311,0.0586525,0.0446271,0.0567557,1.9058,0.275904,0.188302,0.0257031,0.135283,0.282927,1.55229,0.379169,0.307018,0.0780202,0.203688,0.0148507,0.134892,0.0282754,0.527027,0.0669279,0.0173462,0.0887848,1.4647,0.386753,0.310045,0.278995,0.0405242,0.78948,0.000201472,0.340248,0.0130462,0.714393,0.451962,0.115012,0.122463,1.88739,1.72577,0.0921041,2.63528,0.0221805,0.0601771,3.354e-10,0.440081,1.20428,0.129475,0.51773,0.193879,0.0618032,0.656021,0.31724,0.0013358,0.382099,0.278306,0.371282,0.00873051,0.273075,1.65772,0.346538,0.0765169,0.369608,0.0156358,0.000476368,0.107418,0.335996,0.0152146,2.03812e-05,0.0341914,0.266288,0.398725,0.0673288,0.198081,0.125963,0.000474781,0.070782,0.405052,0.0311245,0.106693,0.524942,0.143074,0.653122,0.654712,0.125084,0.350999,0.039673,0.153696,0.235391,1.8786,0.323464,0.428369,0.251591,0.211203,1.83795,0.0430688,0.829909,0.181868,0.845649,0.49117,0.475357,0.157418,1.92532,0.0690863,0.0926779,1.34935,0.808922,1.1829,0.00205095,0.128231,5.98843e-07,0.595976,0.113406,0.057117,0.378894,0.318996,0.0494856,0.340094,0.00120129,1.04847,1.24258,0.547721,0.0693587,0.0674334,0.236608,0.405234,0.671112,0.000142385
|tfbs_overrepresentation_jaspar=MA0003.1;1.09463e-09,MA0004.1;0.0296873,MA0006.1;0.017669,MA0007.1;0.00788731,MA0009.1;0.045024,MA0014.1;2.13999e-11,MA0017.1;2.22667,MA0019.1;0.148817,MA0024.1;0.0340602,MA0025.1;0.136019,MA0027.1;1.32328,MA0028.1;0.00369905,MA0029.1;0.534137,MA0030.1;0.870332,MA0031.1;0.75928,MA0038.1;0.432639,MA0040.1;2.07991,MA0041.1;0.248475,MA0042.1;0.213892,MA0043.1;0.076144,MA0046.1;4.12422,MA0048.1;0.00288385,MA0050.1;1.44171,MA0051.1;0.945729,MA0052.1;0.0508445,MA0055.1;0.0068295,MA0056.1;0,MA0057.1;0.00547876,MA0058.1;0.0354268,MA0059.1;0.00716235,MA0060.1;0.000561329,MA0061.1;0.0105625,MA0063.1;0,MA0066.1;0.403307,MA0067.1;0.197319,MA0068.1;0.00680294,MA0069.1;0.422998,MA0070.1;0.0481441,MA0071.1;1.14519,MA0072.1;0.696573,MA0073.1;1.59048e-09,MA0074.1;0.314556,MA0076.1;0.00871007,MA0077.1;1.00178,MA0078.1;0.806872,MA0081.1;0.114373,MA0083.1;0.0758501,MA0084.1;0.429044,MA0087.1;0.826222,MA0088.1;0.00014802,MA0089.1;0,MA0090.1;0.251779,MA0091.1;0.150566,MA0092.1;0.156736,MA0093.1;0.00458942,MA0095.1;0,MA0098.1;0,MA0100.1;0.0332171,MA0101.1;0.0024699,MA0103.1;0.121293,MA0105.1;0.00934836,MA0106.1;0.57729,MA0107.1;0.00200954,MA0108.2;1.59637,MA0109.1;0,MA0111.1;0.425968,MA0113.1;1.0057,MA0114.1;2.63067,MA0115.1;3.22738,MA0116.1;0.0356793,MA0117.1;0.065652,MA0119.1;0.162507,MA0122.1;0.253423,MA0124.1;0.166641,MA0125.1;0.800664,MA0130.1;0,MA0131.1;0.0106997,MA0132.1;0,MA0133.1;0,MA0135.1;0.302623,MA0136.1;1.05367,MA0139.1;0.00655815,MA0140.1;0.166447,MA0141.1;1.01935,MA0142.1;0.715698,MA0143.1;0.0861295,MA0144.1;0.0407192,MA0145.1;0.38439,MA0146.1;1.85812e-09,MA0147.1;0.000867499,MA0148.1;1.27307,MA0149.1;9.84582,MA0062.2;5.97934e-05,MA0035.2;0.669254,MA0039.2;7.04369e-08,MA0138.2;0.279775,MA0002.2;0.0444058,MA0137.2;0.468953,MA0104.2;1.85791e-05,MA0047.2;0.643827,MA0112.2;0.0206768,MA0065.2;1.74796,MA0150.1;0.616676,MA0151.1;0,MA0152.1;0.430851,MA0153.1;4.33,MA0154.1;0.00492492,MA0155.1;0.0851606,MA0156.1;0.567795,MA0157.1;1.70091,MA0158.1;0,MA0159.1;0.436201,MA0160.1;1.02539,MA0161.1;0,MA0162.1;5.46083e-10,MA0163.1;8.61741e-07,MA0164.1;0.363312,MA0080.2;0.650568,MA0018.2;0.122244,MA0099.2;1.36659,MA0079.2;0,MA0102.2;0.471383,MA0258.1;0.120623,MA0259.1;0.00492314,MA0442.1;0
}}

Latest revision as of 14:42, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:114659747..114659758,-p@chr10:114659747..114659758
-
Mm9::chr10:114659760..114659768,-p@chr10:114659760..114659768
-
Mm9::chr10:127196790..127196802,+p2@Rdh1
Mm9::chr10:21291553..21291560,+p@chr10:21291553..21291560
+
Mm9::chr11:115628115..115628135,+p3@2310067B10Rik
Mm9::chr11:22635514..22635519,+p@chr11:22635514..22635519
+
Mm9::chr11:31679459..31679503,-p@chr11:31679459..31679503
-
Mm9::chr11:4716658..4716667,-p12@Nf2
Mm9::chr11:58234605..58234620,+p1@1810065E05Rik
Mm9::chr11:75774496..75774521,+p@chr11:75774496..75774521
+
Mm9::chr11:95780205..95780215,+p@chr11:95780205..95780215
+
Mm9::chr11:96125205..96125225,+p@chr11:96125205..96125225
+
Mm9::chr11:96787464..96787470,+p@chr11:96787464..96787470
+
Mm9::chr12:32123074..32123092,+p1@Slc26a3
Mm9::chr12:80009362..80009374,-p@chr12:80009362..80009374
-
Mm9::chr13:63252894..63252907,+p@chr13:63252894..63252907
+
Mm9::chr13:96025077..96025093,-p@chr13:96025077..96025093
-
Mm9::chr13:99462670..99462680,-p@chr13:99462670..99462680
-
Mm9::chr13:99462714..99462742,-p@chr13:99462714..99462742
-
Mm9::chr13:99464761..99464774,-p3@Tmem171
Mm9::chr13:99464848..99464860,-p5@Tmem171
Mm9::chr13:99465515..99465533,-p@chr13:99465515..99465533
-
Mm9::chr14:37915424..37915436,-p@chr14:37915424..37915436
-
Mm9::chr14:37923273..37923292,-p1@2610528A11Rik
Mm9::chr14:77221547..77221560,-p@chr14:77221547..77221560
-
Mm9::chr14:99625384..99625393,+p@chr14:99625384..99625393
+
Mm9::chr15:78240340..78240352,+p4@Mpst
Mm9::chr15:78240384..78240468,+p1@Mpst
Mm9::chr16:36694042..36694051,+p4@Ildr1
Mm9::chr16:36694058..36694086,+p2@Ildr1
Mm9::chr16:36694110..36694123,+p3@Ildr1
Mm9::chr16:36694129..36694148,+p1@Ildr1
Mm9::chr16:36708316..36708325,+p@chr16:36708316..36708325
+
Mm9::chr16:48817074..48817089,+p1@Retnlb
Mm9::chr17:26253737..26253748,+p@chr17:26253737..26253748
+
Mm9::chr17:31456802..31456827,+p@chr17:31456802..31456827
+
Mm9::chr17:35051190..35051221,+p3@Slc44a4
Mm9::chr18:36550576..36550580,+p@chr18:36550576..36550580
+
Mm9::chr18:61355852..61355885,-p@chr18:61355852..61355885
-
Mm9::chr18:61356018..61356052,-p@chr18:61356018..61356052
-
Mm9::chr18:61357359..61357371,-p@chr18:61357359..61357371
-
Mm9::chr18:61416448..61416454,+p@chr18:61416448..61416454
+
Mm9::chr19:39085628..39085634,+p@chr19:39085628..39085634
+
Mm9::chr19:39097868..39097878,+p@chr19:39097868..39097878
+
Mm9::chr19:39105844..39105851,+p@chr19:39105844..39105851
+
Mm9::chr19:39110122..39110134,+p@chr19:39110122..39110134
+
Mm9::chr19:39111028..39111033,+p@chr19:39111028..39111033
+
Mm9::chr19:39111527..39111528,+p@chr19:39111527..39111528
+
Mm9::chr19:39116519..39116557,+p@chr19:39116519..39116557
+
Mm9::chr19:39116554..39116558,-p@chr19:39116554..39116558
-
Mm9::chr19:39116764..39116776,+p@chr19:39116764..39116776
+
Mm9::chr19:44043159..44043188,-p3@Cpn1
Mm9::chr1:154920824..154920859,+p@chr1:154920824..154920859
+
Mm9::chr1:175349305..175349344,+p2@Aim2
Mm9::chr1:175349351..175349362,+p5@Aim2
Mm9::chr1:55948913..55948951,+p@chr1:55948913..55948951
+
Mm9::chr1:56076718..56076723,+p@chr1:56076718..56076723
+
Mm9::chr1:57031344..57031364,-p@chr1:57031344..57031364
-
Mm9::chr1:57035356..57035368,-p@chr1:57035356..57035368
-
Mm9::chr1:90083162..90083165,+p3@ENSMUST00000120438
Mm9::chr2:126758729..126758826,-p1@2010106G01Rik
Mm9::chr2:126758858..126758869,-p4@2010106G01Rik
Mm9::chr2:126767724..126767729,-p@chr2:126767724..126767729
-
Mm9::chr2:154890790..154890803,-p@chr2:154890790..154890803
-
Mm9::chr2:32455218..32455246,+p3@St6galnac6
Mm9::chr3:104327693..104327712,-p@chr3:104327693..104327712
-
Mm9::chr3:122588196..122588204,+p@chr3:122588196..122588204
+
Mm9::chr3:14704603..14704612,+p@chr3:14704603..14704612
+
Mm9::chr3:14766412..14766419,+p@chr3:14766412..14766419
+
Mm9::chr3:14766458..14766467,+p@chr3:14766458..14766467
+
Mm9::chr3:14766492..14766507,-p@chr3:14766492..14766507
-
Mm9::chr3:14766570..14766597,-p@chr3:14766570..14766597
-
Mm9::chr3:14766610..14766616,-p@chr3:14766610..14766616
-
Mm9::chr3:14767480..14767489,+p@chr3:14767480..14767489
+
Mm9::chr3:14767495..14767497,-p@chr3:14767495..14767497
-
Mm9::chr3:14769212..14769219,-p@chr3:14769212..14769219
-
Mm9::chr3:14776219..14776238,+p@chr3:14776219..14776238
+
Mm9::chr3:14776254..14776276,-p@chr3:14776254..14776276
-
Mm9::chr3:14778452..14778466,-p1@Car1
Mm9::chr3:52453888..52453895,+p@chr3:52453888..52453895
+
Mm9::chr3:98026071..98026087,+p1@Reg4
Mm9::chr3:98697132..98697168,-p1@Hao2
Mm9::chr4:104783201..104783208,-p@chr4:104783201..104783208
-
Mm9::chr4:106925932..106925961,-p2@Lrrc42
Mm9::chr4:11321033..11321062,-p@chr4:11321033..11321062
-
Mm9::chr5:137913454..137913467,-p@chr5:137913454..137913467
-
Mm9::chr5:148117025..148117035,-p@chr5:148117025..148117035
-
Mm9::chr5:65819593..65819604,-p7@Ugdh
Mm9::chr5:8728205..8728209,+p@chr5:8728205..8728209
+
Mm9::chr5:93348648..93348692,+p@chr5:93348648..93348692
+
Mm9::chr6:135296425..135296448,-p@chr6:135296425..135296448
-
Mm9::chr6:135296469..135296491,-p@chr6:135296469..135296491
-
Mm9::chr6:135296515..135296529,-p@chr6:135296515..135296529
-
Mm9::chr6:52168685..52168715,-p9@Hoxa7
Mm9::chr6:52180946..52180949,-p3@ENSMUST00000174115
Mm9::chr6:71992538..71992554,-p@chr6:71992538..71992554
-
Mm9::chr6:71992563..71992566,-p@chr6:71992563..71992566
-
Mm9::chr6:72579278..72579298,+p1@Gm15401
Mm9::chr6:72586238..72586252,+p2@ENSMUST00000101278
p2@uc009cjb.1
Mm9::chr6:72586262..72586275,+p4@ENSMUST00000101278
p4@uc009cjb.1
Mm9::chr6:72586282..72586315,+p1@ENSMUST00000101278
p1@uc009cjb.1
Mm9::chr6:72586321..72586326,+p6@ENSMUST00000101278
p6@uc009cjb.1
Mm9::chr7:105310687..105310700,-p6@Capn5
Mm9::chr7:105564132..105564135,-p@chr7:105564132..105564135
-
Mm9::chr7:136913352..136913382,-p@chr7:136913352..136913382
-
Mm9::chr7:25378919..25378933,+p@chr7:25378919..25378933
+
Mm9::chr7:26248501..26248536,-p@chr7:26248501..26248536
-
Mm9::chr7:26248719..26248737,-p@chr7:26248719..26248737
-
Mm9::chr7:26249284..26249287,-p@chr7:26249284..26249287
-
Mm9::chr7:26251418..26251441,-p@chr7:26251418..26251441
-
Mm9::chr7:26256897..26256910,+p@chr7:26256897..26256910
+
Mm9::chr7:26256939..26256990,-p@chr7:26256939..26256990
-
Mm9::chr7:26256992..26257016,-p@chr7:26256992..26257016
-
Mm9::chr7:26257039..26257042,-p@chr7:26257039..26257042
-
Mm9::chr7:26261571..26261582,-p@chr7:26261571..26261582
-
Mm9::chr7:26261715..26261720,-p@chr7:26261715..26261720
-
Mm9::chr8:116378785..116378794,-p@chr8:116378785..116378794
-
Mm9::chr8:116378817..116378824,-p@chr8:116378817..116378824
-
Mm9::chr8:116378833..116378842,-p@chr8:116378833..116378842
-
Mm9::chr8:116378848..116378855,-p@chr8:116378848..116378855
-
Mm9::chr8:25590534..25590580,+p@chr8:25590534..25590580
+
Mm9::chr9:37062988..37063004,-p1@Slc37a2
Mm9::chr9:64062440..64062445,-p@chr9:64062440..64062445
-
Mm9::chr9:69885758..69885767,-p@chr9:69885758..69885767
-
Mm9::chr9:69885800..69885825,-p1@Gcnt3
Mm9::chr9:69885850..69885859,-p4@Gcnt3
Mm9::chr9:69885882..69885900,-p3@Gcnt3
Mm9::chr9:69885903..69885916,-p2@Gcnt3


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:0008272sulfate transport0.0398153728154276
GO:0016614oxidoreductase activity, acting on CH-OH group of donors0.0398153728154276
GO:0004184lysine carboxypeptidase activity0.0398153728154276
GO:00167843-mercaptopyruvate sulfurtransferase activity0.0398153728154276
GO:0015169glycerol-3-phosphate transmembrane transporter activity0.0398153728154276
GO:0006127glycerophosphate shuttle0.0398153728154276
GO:0015794glycerol-3-phosphate transport0.0398153728154276
GO:0003979UDP-glucose 6-dehydrogenase activity0.0398153728154276
GO:0015168glycerol transmembrane transporter activity0.0398153728154276
GO:0015665alcohol transmembrane transporter activity0.0398153728154276
GO:0015793glycerol transport0.0398153728154276
GO:0015166polyol transmembrane transporter activity0.0398153728154276



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>

Uber Anatomy
Ontology termp-valuen
intestine1.33e-1831
gastrointestinal system5.58e-1547
ileal mucosa1.42e-103
ileum1.42e-103
mucosa of small intestine1.42e-103
wall of small intestine1.42e-103
caecum4.39e-091
midgut4.39e-091
small intestine3.73e-084
digestive system9.36e-07116
digestive tract9.36e-07116
primitive gut9.36e-07116


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)
MA0003.11.09463e-09
MA0004.10.0296873
MA0006.10.017669
MA0007.10.00788731
MA0009.10.045024
MA0014.12.13999e-11
MA0017.12.22667
MA0019.10.148817
MA0024.10.0340602
MA0025.10.136019
MA0027.11.32328
MA0028.10.00369905
MA0029.10.534137
MA0030.10.870332
MA0031.10.75928
MA0038.10.432639
MA0040.12.07991
MA0041.10.248475
MA0042.10.213892
MA0043.10.076144
MA0046.14.12422
MA0048.10.00288385
MA0050.11.44171
MA0051.10.945729
MA0052.10.0508445
MA0055.10.0068295
MA0056.10
MA0057.10.00547876
MA0058.10.0354268
MA0059.10.00716235
MA0060.10.000561329
MA0061.10.0105625
MA0063.10
MA0066.10.403307
MA0067.10.197319
MA0068.10.00680294
MA0069.10.422998
MA0070.10.0481441
MA0071.11.14519
MA0072.10.696573
MA0073.11.59048e-09
MA0074.10.314556
MA0076.10.00871007
MA0077.11.00178
MA0078.10.806872
MA0081.10.114373
MA0083.10.0758501
MA0084.10.429044
MA0087.10.826222
MA0088.10.00014802
MA0089.10
MA0090.10.251779
MA0091.10.150566
MA0092.10.156736
MA0093.10.00458942
MA0095.10
MA0098.10
MA0100.10.0332171
MA0101.10.0024699
MA0103.10.121293
MA0105.10.00934836
MA0106.10.57729
MA0107.10.00200954
MA0108.21.59637
MA0109.10
MA0111.10.425968
MA0113.11.0057
MA0114.12.63067
MA0115.13.22738
MA0116.10.0356793
MA0117.10.065652
MA0119.10.162507
MA0122.10.253423
MA0124.10.166641
MA0125.10.800664
MA0130.10
MA0131.10.0106997
MA0132.10
MA0133.10
MA0135.10.302623
MA0136.11.05367
MA0139.10.00655815
MA0140.10.166447
MA0141.11.01935
MA0142.10.715698
MA0143.10.0861295
MA0144.10.0407192
MA0145.10.38439
MA0146.11.85812e-09
MA0147.10.000867499
MA0148.11.27307
MA0149.19.84582
MA0062.25.97934e-05
MA0035.20.669254
MA0039.27.04369e-08
MA0138.20.279775
MA0002.20.0444058
MA0137.20.468953
MA0104.21.85791e-05
MA0047.20.643827
MA0112.20.0206768
MA0065.21.74796
MA0150.10.616676
MA0151.10
MA0152.10.430851
MA0153.14.33
MA0154.10.00492492
MA0155.10.0851606
MA0156.10.567795
MA0157.11.70091
MA0158.10
MA0159.10.436201
MA0160.11.02539
MA0161.10
MA0162.15.46083e-10
MA0163.18.61741e-07
MA0164.10.363312
MA0080.20.650568
MA0018.20.122244
MA0099.21.36659
MA0079.20
MA0102.20.471383
MA0258.10.120623
MA0259.10.00492314
MA0442.10
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