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MCL coexpression mm9:314: Difference between revisions

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{{MCL_coexpression_mm9
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activity, transferring glycosyl groups;0.0011194633290528;67569,72077,14426!GO:0008375;acetylglucosaminyltransferase activity;0.0011194633290528;67569,72077!GO:0008194;UDP-glycosyltransferase activity;0.00565137585170196;67569,72077!GO:0005794;Golgi apparatus;0.00565137585170196;67569,72077,14426!GO:0016758;transferase activity, transferring hexosyl groups;0.00673005426702396;67569,72077!GO:0008109;N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity;0.00673005426702396;72077!GO:0003829;beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity;0.00673005426702396;72077!GO:0008454;alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity;0.00706578264803484;67569!GO:0042910;xenobiotic transporter activity;0.00706578264803484;18671!GO:0008559;xenobiotic-transporting ATPase activity;0.00706578264803484;18671!GO:0015239;multidrug transporter activity;0.0085636465461218;18671!GO:0046581;intercellular canaliculus;0.0137330008805963;18671!GO:0016021;integral to membrane;0.017698505694749;67569,72077,14426,213819,18671!GO:0031224;intrinsic to membrane;0.017698505694749;67569,72077,14426,213819,18671!GO:0015893;drug transport;0.0193728996622652;18671!GO:0006493;protein amino acid O-linked glycosylation;0.0193728996622652;72077!GO:0015238;drug transporter activity;0.0193728996622652;18671!GO:0044425;membrane part;0.0206057324480722;67569,72077,14426,213819,18671!GO:0016740;transferase activity;0.0328944759667272;67569,72077,14426!GO:0042493;response to 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|coexpression_dpi_cluster_scores_median=0,0.229925105835837,0.281033021353425,0.280440101118034,0.176350522035494,0.223110820673195,0.420828164225892,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.510530790731187,0.452595073410909,0.197068726315728,0.269868638010351,0.360371362302498,0.745118692704118,0.631077476625533,0.6132313888735,0,0,0,0.19802531727213,0.367333024504598,0.207501896467584,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.107511441879825,0,0,0,0,0,0,0,0,0,0,0.330786781096625,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.927148048437346,0,0,0.550787138645144,0,0,0,0,0,0,0,0,0,0,0,0,0.354802331421785,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.36580144956338,0.455020670504391,0,0,0.141951942539884,0.302854023491376,0.368150765366504,0.504400667364477,0.585141870708775,0.49707988402132,0.618976248966234,0.554662859595804,0.571650287722448,0.662311755447834,0.791502100226078,0.714494621038649,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0998284739419172,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.439156574576173,0,0,0,0,0,0,0,0,0,0,0.463794662544282,0,0,0.0849373898696927,0.151730312771305,0.258567039193022,0.223838914215041,0.198264997748062,0.311122885272949,1.15945182196718,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0388749848471105,0.0523284672130554,0.0472245945615809,0,0.0476191773904887,0,0,0.0296538495026687,0,0.0709519923534245,0,0,0.0390607415003592,0.0352754493378881,0,0,0.0553034373508932,0,0,0.0408018333703219,0,0.0625582350728301,0,0,0.0506313079653279,0.0845301845292944,0,0,0
|gostat_on_MCL_coexpression=GO:0016757;transferase activity, transferring glycosyl groups;0.0011194633290528;67569,72077,14426!GO:0008375;acetylglucosaminyltransferase activity;0.0011194633290528;67569,72077!GO:0008194;UDP-glycosyltransferase activity;0.00565137585170196;67569,72077!GO:0005794;Golgi apparatus;0.00565137585170196;67569,72077,14426!GO:0016758;transferase activity, transferring hexosyl groups;0.00673005426702396;67569,72077!GO:0008109;N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity;0.00673005426702396;72077!GO:0003829;beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity;0.00673005426702396;72077!GO:0008454;alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity;0.00706578264803484;67569!GO:0042910;xenobiotic transporter activity;0.00706578264803484;18671!GO:0008559;xenobiotic-transporting ATPase activity;0.00706578264803484;18671!GO:0015239;multidrug transporter activity;0.0085636465461218;18671!GO:0046581;intercellular canaliculus;0.0137330008805963;18671!GO:0016021;integral to membrane;0.017698505694749;67569,72077,14426,213819,18671!GO:0031224;intrinsic to membrane;0.017698505694749;67569,72077,14426,213819,18671!GO:0015893;drug transport;0.0193728996622652;18671!GO:0006493;protein amino acid O-linked glycosylation;0.0193728996622652;72077!GO:0015238;drug transporter activity;0.0193728996622652;18671!GO:0044425;membrane part;0.0206057324480722;67569,72077,14426,213819,18671!GO:0016740;transferase activity;0.0328944759667272;67569,72077,14426!GO:0042493;response to drug;0.0352245386378794;18671!GO:0016020;membrane;0.0417803696323778;67569,72077,14426,213819,18671!
|ontology_enrichment_celltype=CL:0002563!1.04e-12!9;CL:0002251!1.04e-12!9;CL:0000239!5.16e-09!6;CL:0000677!5.16e-09!6;CL:0000212!5.16e-09!6;CL:0000584!5.16e-09!6;CL:0000075!1.32e-07!7;CL:0002076!7.04e-07!15
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005409!4.16e-42!47;UBERON:0000160!2.62e-41!31;UBERON:0000344!4.42e-22!15;UBERON:0001242!4.86e-19!13;UBERON:0000060!4.86e-19!13;UBERON:0001262!4.86e-19!13;UBERON:0004786!4.86e-19!13;UBERON:0001007!6.55e-13!116;UBERON:0001555!6.55e-13!116;UBERON:0007026!6.55e-13!116;UBERON:0003350!1.04e-12!9;UBERON:0004808!1.04e-12!9;UBERON:0001277!1.04e-12!9;UBERON:0004119!1.63e-12!118;UBERON:0000925!1.63e-12!118;UBERON:0006595!1.63e-12!118;UBERON:0004923!3.06e-12!24;UBERON:0004921!2.65e-11!114;UBERON:0000485!4.75e-10!11;UBERON:0002108!5.90e-08!4
|tfbs_overrepresentation_for_novel_motifs=0.0957479,0.62037,0.082828,1.80609,0.148285,0.398187,0.538273,0.856869,0.185974,0.135725,0.154519,0.174808,0.0649643,0.19087,0.672427,0,0.333505,0.140166,0.300991,0.553915,0.0661203,0.123805,1.67162,0.614199,0.0864761,0.60292,1.04612,0.138754,0.0537016,0.332722,0.408389,1.06944,0.137902,0.411336,0.166509,0.0223393,0.128707,0.513348,0.263333,0.212494,0.335087,0.133472,0.189459,0.678914,0.385364,0.112117,0.271716,0.45352,1.18007,0.201733,0.85605,0.228569,0.310742,1.33224,0.554419,0.195691,1.22578,0.964223,0.692727,0.194311,0.39965,0.235329,0.653348,0.836197,0.20328,0.90792,0.678037,1.00855,0.395762,0.867464,0.547195,0.0689862,0.244404,0.584436,0.00783682,0.102175,1.24828,0.72791,1.00174,0.240083,2.58086,0.347414,0.234292,0.322554,0.48244,0.000561718,4.1254,0.531868,0.275409,1.16606,0.74267,0.486763,0.427209,0.355202,0.0245071,0.0896384,0.167294,1.09803,0.271907,0.0621848,0.883635,0.416179,0.523506,0.8571,0.31931,0.133214,0.367229,0.145827,0.0700831,0.0668927,0.307666,0.525078,0.887088,0.157745,0.749248,0.331504,0.170096,0.120391,0.334542,1.69373,0.589296,0.294572,0.605922,0.726359,0.800032,0.388466,0.188119,0.421488,0.67664,1.0077,0.508573,0.114231,0.649498,0.591864,0.769462,0.96091,0.328991,0.134301,0.723554,1.52843,1.13499,0.682379,0.219341,0.425235,0.31422,0.416785,0.274066,1.4892,0.680093,0.624654,0.0865549,0.186728,0.540306,0.0945798,0.204372,1.48969,0.649218,0.179236,0.313953,0.0999378,0.732404,0.481698,0.388835,0.0910449,0.311631,0.578243,0.031248,0.516562,0.116093
}}

Latest revision as of 15:05, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:101837063..101837079,+p1@Mgat4c
Mm9::chr10:98570772..98570840,+p1@Galnt4
Mm9::chr11:58195782..58195801,+p@chr11:58195782..58195801
+
Mm9::chr11:58195812..58195827,+p@chr11:58195812..58195827
+
Mm9::chr11:58195835..58195850,+p@chr11:58195835..58195850
+
Mm9::chr11:58196339..58196348,+p@chr11:58196339..58196348
+
Mm9::chr11:58198109..58198122,+p@chr11:58198109..58198122
+
Mm9::chr11:58198170..58198190,+p@chr11:58198170..58198190
+
Mm9::chr11:58198242..58198248,+p@chr11:58198242..58198248
+
Mm9::chr11:58200272..58200306,-p@chr11:58200272..58200306
-
Mm9::chr11:58200324..58200338,-p@chr11:58200324..58200338
-
Mm9::chr11:58203653..58203660,-p@chr11:58203653..58203660
-
Mm9::chr11:58203666..58203680,-p@chr11:58203666..58203680
-
Mm9::chr11:58203760..58203791,-p@chr11:58203760..58203791
-
Mm9::chr11:58207426..58207436,+p@chr11:58207426..58207436
+
Mm9::chr13:101207449..101207462,-p@chr13:101207449..101207462
-
Mm9::chr5:113918124..113918145,+p@chr5:113918124..113918145
+
Mm9::chr5:8660059..8660099,+p1@Abcb1a
Mm9::chr6:4550658..4550676,+p5@Casd1
Mm9::chr7:26248671..26248685,+p@chr7:26248671..26248685
+
Mm9::chr7:26251376..26251402,-p@chr7:26251376..26251402
-
Mm9::chr7:31391945..31391961,-p@chr7:31391945..31391961
-
Mm9::chr7:52976606..52976614,+p2@Fam83e
Mm9::chr9:69885861..69885864,-p5@Gcnt3
Mm9::chrX:136059368..136059390,+p@chrX:136059368..136059390
+


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:0016757transferase activity, transferring glycosyl groups0.0011194633290528
GO:0008375acetylglucosaminyltransferase activity0.0011194633290528
GO:0008194UDP-glycosyltransferase activity0.00565137585170196
GO:0005794Golgi apparatus0.00565137585170196
GO:0016758transferase activity, transferring hexosyl groups0.00673005426702396
GO:0008109N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity0.00673005426702396
GO:0003829beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity0.00673005426702396
GO:0008454alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity0.00706578264803484
GO:0042910xenobiotic transporter activity0.00706578264803484
GO:0008559xenobiotic-transporting ATPase activity0.00706578264803484
GO:0015239multidrug transporter activity0.0085636465461218
GO:0046581intercellular canaliculus0.0137330008805963
GO:0016021integral to membrane0.017698505694749
GO:0031224intrinsic to membrane0.017698505694749
GO:0015893drug transport0.0193728996622652
GO:0006493protein amino acid O-linked glycosylation0.0193728996622652
GO:0015238drug transporter activity0.0193728996622652
GO:0044425membrane part0.0206057324480722
GO:0016740transferase activity0.0328944759667272
GO:0042493response to drug0.0352245386378794
GO:0016020membrane0.0417803696323778



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>


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)
MA0003.17.92629e-06
MA0004.10.377695
MA0006.10.0416362
MA0007.10.356106
MA0009.10.438777
MA0014.10.000494543
MA0017.10.190692
MA0019.10.790934
MA0024.10.401898
MA0025.10.645374
MA0027.12.02409
MA0028.10.0452573
MA0029.10.383872
MA0030.10.389298
MA0031.10.360121
MA0038.10.209603
MA0040.10.449452
MA0041.10.0795363
MA0042.10.0734808
MA0043.10.522621
MA0046.12.05979
MA0048.10.0033318
MA0050.10.435264
MA0051.11.16012
MA0052.11.15587
MA0055.10.065572
MA0056.10
MA0057.10.12338
MA0058.10.24722
MA0059.10.0759876
MA0060.10.085477
MA0061.10.0263971
MA0063.10
MA0066.10.20204
MA0067.10.748059
MA0068.10.246947
MA0069.10.456647
MA0070.10.448343
MA0071.10.433998
MA0072.11.12297
MA0073.10.000352331
MA0074.10.178027
MA0076.10.0586682
MA0077.10.422739
MA0078.10.672666
MA0081.11.02579
MA0083.10.521922
MA0084.11.0607
MA0087.10.484199
MA0088.10.062577
MA0089.10
MA0090.10.674294
MA0091.10.396925
MA0092.10.100239
MA0093.10.181765
MA0095.10
MA0098.10
MA0100.10.508591
MA0101.10.0801429
MA0103.10.447794
MA0105.10.105475
MA0106.10.244965
MA0107.10.0529506
MA0108.20.308463
MA0109.10
MA0111.11.71244
MA0113.10.224694
MA0114.10.793821
MA0115.10.525089
MA0116.10.161005
MA0117.10.496768
MA0119.10.579392
MA0122.10.514153
MA0124.10.698593
MA0125.10.630583
MA0130.10
MA0131.10.287321
MA0132.10
MA0133.10
MA0135.10.554905
MA0136.10.191208
MA0139.10.165104
MA0140.10.50841
MA0141.10.491507
MA0142.10.34839
MA0143.10.236381
MA0144.12.06957
MA0145.10.150193
MA0146.10.0981829
MA0147.10.123349
MA0148.11.30031
MA0149.10.0827548
MA0062.20.00745981
MA0035.20.515842
MA0039.20.000757165
MA0138.20.281269
MA0002.20.169578
MA0137.21.76689
MA0104.20.0744814
MA0047.21.13392
MA0112.20.414515
MA0065.20.151106
MA0150.10.110236
MA0151.10
MA0152.10.209147
MA0153.10.569763
MA0154.11.20003
MA0155.10.491393
MA0156.10.212038
MA0157.10.322822
MA0158.10
MA0159.10.313465
MA0160.10.807296
MA0161.10
MA0162.10.000333298
MA0163.10.000236511
MA0164.10.191451
MA0080.21.16684
MA0018.20.197998
MA0099.20.276491
MA0079.23.47252e-09
MA0102.21.11159
MA0258.10.7371
MA0259.10.273672
MA0442.10
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