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MCL coexpression mm9:126: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000160!2.37e-52!31;UBERON:0005409!2.20e-37!47;UBERON:0000344!1.15e-32!15;UBERON:0001242!2.77e-28!13;UBERON:0000060!2.77e-28!13;UBERON:0001262!2.77e-28!13;UBERON:0004786!2.77e-28!13;UBERON:0003350!3.76e-19!9;UBERON:0004808!3.76e-19!9;UBERON:0001277!3.76e-19!9;UBERON:0004923!5.23e-19!24;UBERON:0000485!2.39e-15!11;UBERON:0001007!2.99e-13!116;UBERON:0001555!2.99e-13!116;UBERON:0007026!2.99e-13!116;UBERON:0004119!6.68e-13!118;UBERON:0000925!6.68e-13!118;UBERON:0006595!6.68e-13!118;UBERON:0004921!2.74e-11!114;UBERON:0002108!1.11e-10!4;UBERON:0000331!1.10e-08!3;UBERON:0002116!1.10e-08!3;UBERON:0001204!1.10e-08!3;UBERON:0001168!1.10e-08!3
|ontology_enrichment_uberon=UBERON:0000160!2.37e-52!31;UBERON:0005409!2.20e-37!47;UBERON:0000344!1.15e-32!15;UBERON:0001242!2.77e-28!13;UBERON:0000060!2.77e-28!13;UBERON:0001262!2.77e-28!13;UBERON:0004786!2.77e-28!13;UBERON:0003350!3.76e-19!9;UBERON:0004808!3.76e-19!9;UBERON:0001277!3.76e-19!9;UBERON:0004923!5.23e-19!24;UBERON:0000485!2.39e-15!11;UBERON:0001007!2.99e-13!116;UBERON:0001555!2.99e-13!116;UBERON:0007026!2.99e-13!116;UBERON:0004119!6.68e-13!118;UBERON:0000925!6.68e-13!118;UBERON:0006595!6.68e-13!118;UBERON:0004921!2.74e-11!114;UBERON:0002108!1.11e-10!4;UBERON:0000331!1.10e-08!3;UBERON:0002116!1.10e-08!3;UBERON:0001204!1.10e-08!3;UBERON:0001168!1.10e-08!3
|tfbs_overrepresentation_for_novel_motifs=0.0671109,1.01059,0.104874,0.527358,0.817251,0.579206,0.116536,1.14018,0.146254,0.000821487,0.0265898,0.396806,0.0444915,0.127898,1.17163,0,0.0437745,0.962509,0.0549347,0.57309,1.14687,0.466927,0.0454874,0.0818545,0.497655,0.155582,0.118957,0.0632804,0.0431693,0.285143,0.127814,0.562039,0.124865,0.835995,0.181354,0.000766001,1.98733e-05,0.388182,2.43422,0.0094706,0.45174,0.25231,1.5023,0.411687,0.0301572,0.316533,0.0251311,0.0238317,1.19991,0.946934,0.634318,0.0713424,0.127549,0.43511,0.896005,0.1348,1.54582,0.0323794,0.212965,0.047952,0.0695359,0.0167131,2.79021,0.144215,0.295969,0.400695,0.230929,0.492678,0.239843,0.374628,0.0840338,0.662494,1.29178e-05,0.168616,0.000337456,0.100208,1.18816,0.24494,0.227248,1.17887,0.20862,0.0487078,2.66873,0.567427,0.109436,2.42195e-06,0.00439704,0.00259817,0.0260926,0.632033,0.27763,0.359881,0.0819222,0.860062,9.41298e-05,0.307223,0.463783,0.0830332,0.260761,0.0871428,0.267002,0.561501,0.818419,0.353874,0.987971,0.0178405,0.0561876,0.293696,0.011577,0.00240042,0.0617916,0.132942,0.232553,0.0845831,0.282531,1.4595,8.47699e-05,0.3543,0.16905,0.254361,0.171677,0.880633,0.534635,0.460285,0.321202,0.230942,0.257358,0.0792746,0.22995,0.685548,0.390837,0.00176937,1.14225,0.0547756,0.29775,0.0419488,0.00798173,0.882012,0.263538,0.971049,0.604039,0.660197,0.170648,0.0810046,0.341981,0.625697,0.494371,0.933509,0.422424,0.0448487,0.760884,1.20458e-07,0.860415,0.453313,1.09457,0.54936,0.607845,0.2088,0.776894,0.028868,0.270034,0.715835,0.231389,0.225194,0.336819,0.489324,0.029636,0.104621,0.0126157
|tfbs_overrepresentation_for_novel_motifs=0.0671109,1.01059,0.104874,0.527358,0.817251,0.579206,0.116536,1.14018,0.146254,0.000821487,0.0265898,0.396806,0.0444915,0.127898,1.17163,0,0.0437745,0.962509,0.0549347,0.57309,1.14687,0.466927,0.0454874,0.0818545,0.497655,0.155582,0.118957,0.0632804,0.0431693,0.285143,0.127814,0.562039,0.124865,0.835995,0.181354,0.000766001,1.98733e-05,0.388182,2.43422,0.0094706,0.45174,0.25231,1.5023,0.411687,0.0301572,0.316533,0.0251311,0.0238317,1.19991,0.946934,0.634318,0.0713424,0.127549,0.43511,0.896005,0.1348,1.54582,0.0323794,0.212965,0.047952,0.0695359,0.0167131,2.79021,0.144215,0.295969,0.400695,0.230929,0.492678,0.239843,0.374628,0.0840338,0.662494,1.29178e-05,0.168616,0.000337456,0.100208,1.18816,0.24494,0.227248,1.17887,0.20862,0.0487078,2.66873,0.567427,0.109436,2.42195e-06,0.00439704,0.00259817,0.0260926,0.632033,0.27763,0.359881,0.0819222,0.860062,9.41298e-05,0.307223,0.463783,0.0830332,0.260761,0.0871428,0.267002,0.561501,0.818419,0.353874,0.987971,0.0178405,0.0561876,0.293696,0.011577,0.00240042,0.0617916,0.132942,0.232553,0.0845831,0.282531,1.4595,8.47699e-05,0.3543,0.16905,0.254361,0.171677,0.880633,0.534635,0.460285,0.321202,0.230942,0.257358,0.0792746,0.22995,0.685548,0.390837,0.00176937,1.14225,0.0547756,0.29775,0.0419488,0.00798173,0.882012,0.263538,0.971049,0.604039,0.660197,0.170648,0.0810046,0.341981,0.625697,0.494371,0.933509,0.422424,0.0448487,0.760884,1.20458e-07,0.860415,0.453313,1.09457,0.54936,0.607845,0.2088,0.776894,0.028868,0.270034,0.715835,0.231389,0.225194,0.336819,0.489324,0.029636,0.104621,0.0126157
|tfbs_overrepresentation_jaspar=MA0003.1;1.04916e-09,MA0004.1;0.753589,MA0006.1;0.00053868,MA0007.1;1.53964,MA0009.1;0.0873947,MA0014.1;2.86777e-07,MA0017.1;1.96439,MA0019.1;0.296166,MA0024.1;0.0705114,MA0025.1;0.208415,MA0027.1;1.45458,MA0028.1;0.0115568,MA0029.1;1.27549,MA0030.1;0.231951,MA0031.1;0.19752,MA0038.1;0.803338,MA0040.1;1.06602,MA0041.1;0.294092,MA0042.1;0.155819,MA0043.1;0.131537,MA0046.1;4.43168,MA0048.1;0.0113589,MA0050.1;1.58737,MA0051.1;4.08933,MA0052.1;0.318045,MA0055.1;0.0496841,MA0056.1;0,MA0057.1;0.0238829,MA0058.1;0.374538,MA0059.1;0.165266,MA0060.1;0.0446083,MA0061.1;0.00070806,MA0063.1;0,MA0066.1;0.763189,MA0067.1;0.281643,MA0068.1;0.458188,MA0069.1;0.318438,MA0070.1;0.0920389,MA0071.1;2.82025,MA0072.1;0.297689,MA0073.1;4.75944e-13,MA0074.1;0.232591,MA0076.1;0.00715791,MA0077.1;0.0798504,MA0078.1;0.203324,MA0081.1;0.336716,MA0083.1;0.131138,MA0084.1;1.33044,MA0087.1;0.356293,MA0088.1;0.408377,MA0089.1;0,MA0090.1;0.604984,MA0091.1;0.814037,MA0092.1;0.264106,MA0093.1;1.05037,MA0095.1;0,MA0098.1;0,MA0100.1;0.100403,MA0101.1;0.0164756,MA0103.1;0.16459,MA0105.1;0.000229012,MA0106.1;0.671714,MA0107.1;0.0170787,MA0108.2;0.14182,MA0109.1;0,MA0111.1;0.46057,MA0113.1;0.179197,MA0114.1;5.09165,MA0115.1;1.333,MA0116.1;0.000535758,MA0117.1;0.117124,MA0119.1;4.62585,MA0122.1;0.126741,MA0124.1;0.245485,MA0125.1;0.198482,MA0130.1;0,MA0131.1;0.0293268,MA0132.1;0,MA0133.1;0,MA0135.1;0.458972,MA0136.1;1.00551,MA0139.1;0.0210386,MA0140.1;4.42756,MA0141.1;1.09843,MA0142.1;0.184255,MA0143.1;0.0772871,MA0144.1;1.1334,MA0145.1;0.192849,MA0146.1;1.65767e-05,MA0147.1;0.0271173,MA0148.1;0.388672,MA0149.1;0.000599527,MA0062.2;0.000975997,MA0035.2;4.48984,MA0039.2;0.00385814,MA0138.2;0.515938,MA0002.2;0.260384,MA0137.2;0.199199,MA0104.2;0.0158296,MA0047.2;0.527366,MA0112.2;2.7967,MA0065.2;0.410823,MA0150.1;0.0105259,MA0151.1;0,MA0152.1;1.12701,MA0153.1;3.6444,MA0154.1;0.40409,MA0155.1;0.0533932,MA0156.1;0.179491,MA0157.1;0.0401663,MA0158.1;0,MA0159.1;0.713102,MA0160.1;0.598471,MA0161.1;0,MA0162.1;1.58111e-07,MA0163.1;1.33358e-05,MA0164.1;0.707463,MA0080.2;0.918931,MA0018.2;0.282334,MA0099.2;0.111138,MA0079.2;1.68757e-15,MA0102.2;0.583106,MA0258.1;1.66693,MA0259.1;0.00890037,MA0442.1;0
}}
}}

Revision as of 11:13, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127140579..127140608,+p@chr10:127140579..127140608
+
Mm9::chr11:44332019..44332038,+p9@Rnf145
Mm9::chr11:66770184..66770195,+p5@ENSMUST00000150220
Mm9::chr11:66770199..66770206,+p6@ENSMUST00000150220
Mm9::chr11:73138118..73138143,-p1@Aspa
Mm9::chr11:86859413..86859433,-p@chr11:86859413..86859433
-
Mm9::chr11:9018574..9018596,+p2@Upp1
Mm9::chr11:9018622..9018637,+p1@Upp1
Mm9::chr11:95698517..95698533,-p@chr11:95698517..95698533
-
Mm9::chr11:96911908..96911944,+p3@Osbpl7
Mm9::chr11:99290206..99290211,-p@chr11:99290206..99290211
-
Mm9::chr12:114390254..114390268,+p1@Crip1
Mm9::chr12:40860762..40860777,-p1@Scin
Mm9::chr13:54821506..54821522,+p@chr13:54821506..54821522
+
Mm9::chr13:54828152..54828163,+p@chr13:54828152..54828163
+
Mm9::chr13:6108314..6108324,-p@chr13:6108314..6108324
-
Mm9::chr14:121859351..121859356,-p@chr14:121859351..121859356
-
Mm9::chr15:84859374..84859388,+p@chr15:84859374..84859388
+
Mm9::chr16:32487729..32487745,-p2@Osta
Mm9::chr16:32487753..32487808,-p1@Osta
Mm9::chr16:32487895..32487910,-p5@Osta
Mm9::chr16:38781282..38781293,-p@chr16:38781282..38781293
-
Mm9::chr17:24112150..24112202,-p1@Prss30
Mm9::chr17:32795823..32795858,+p1@Cyp4f40
Mm9::chr17:32795911..32795922,+p8@Cyp4f40
Mm9::chr17:32795934..32795947,+p4@Cyp4f40
Mm9::chr17:32795954..32795965,+p7@Cyp4f40
Mm9::chr17:32795966..32795986,+p2@Cyp4f40
Mm9::chr17:32795989..32796003,+p3@Cyp4f40
Mm9::chr17:32796011..32796024,+p6@Cyp4f40
Mm9::chr17:32796025..32796036,+p5@Cyp4f40
Mm9::chr17:34484746..34484750,+p@chr17:34484746..34484750
+
Mm9::chr17:35051404..35051421,+p1@Slc44a4
Mm9::chr17:88039650..88039663,+p@chr17:88039650..88039663
+
Mm9::chr18:21230830..21230852,+p1@Mep1b
Mm9::chr18:84846066..84846071,-p@chr18:84846066..84846071
-
Mm9::chr19:10140180..10140221,-p@chr19:10140180..10140221
-
Mm9::chr19:11155524..11155535,-p@chr19:11155524..11155535
-
Mm9::chr19:6105774..6105789,+p1@Naaladl1
Mm9::chr19:6108614..6108624,+p@chr19:6108614..6108624
+
Mm9::chr1:132741268..132741278,+p@chr1:132741268..132741278
+
Mm9::chr1:164816600..164816622,-p7@Fmo2
Mm9::chr1:164816630..164816633,-p12@Fmo2
Mm9::chr1:164816643..164816668,-p9@Fmo2
Mm9::chr1:74473929..74473934,+p@chr1:74473929..74473934
+
Mm9::chr2:118598502..118598516,+p1@Phgr1
Mm9::chr2:122126867..122126886,+p@chr2:122126867..122126886
+
Mm9::chr2:151822241..151822292,+p1@2310046K01Rik
Mm9::chr2:15448154..15448155,+p@chr2:15448154..15448155
+
Mm9::chr2:25119824..25119833,+p7@Tprn
Mm9::chr2:72453221..72453226,-p@chr2:72453221..72453226
-
Mm9::chr2:84355708..84355747,+p@chr2:84355708..84355747
+
Mm9::chr3:122599651..122599691,+p@chr3:122599651..122599691
+
Mm9::chr4:3866528..3866568,+p3@Chchd7
Mm9::chr4:46550462..46550465,-p@chr4:46550462..46550465
-
Mm9::chr5:135488682..135488693,-p@chr5:135488682..135488693
-
Mm9::chr5:144811498..144811515,-p1@Ocm
Mm9::chr5:31350252..31350259,-p13@Slc5a6
Mm9::chr5:32549822..32549841,+p1@Plb1
Mm9::chr5:33491600..33491610,+p@chr5:33491600..33491610
+
Mm9::chr5:53429320..53429324,+p2@Slc34a2
Mm9::chr6:128598890..128598904,+p@chr6:128598890..128598904
+
Mm9::chr6:128624019..128624031,+p@chr6:128624019..128624031
+
Mm9::chr6:40578569..40578578,+p3@Mgam
Mm9::chr6:40578587..40578594,+p4@Mgam
Mm9::chr6:40578600..40578609,+p7@Mgam
Mm9::chr6:48845242..48845263,+p1@Abp1
Mm9::chr6:54191887..54191906,-p@chr6:54191887..54191906
-
Mm9::chr6:54279832..54279837,+p@chr6:54279832..54279837
+
Mm9::chr6:86704892..86704905,-p@chr6:86704892..86704905
-
Mm9::chr6:86725155..86725177,-p@chr6:86725155..86725177
-
Mm9::chr7:148459920..148459932,-p@chr7:148459920..148459932
-
Mm9::chr7:29620915..29620941,+p5@Lgals4
Mm9::chr7:36234173..36234186,+p2@Slc7a9
Mm9::chr7:52596081..52596112,-p1@Ppfia3
Mm9::chr7:86971794..86971813,-p@chr7:86971794..86971813
-
Mm9::chr7:86981228..86981239,-p@chr7:86981228..86981239
-
Mm9::chr7:86984339..86984384,-p@chr7:86984339..86984384
-
Mm9::chr7:86985789..86985803,-p@chr7:86985789..86985803
-
Mm9::chr7:86986715..86986725,+p@chr7:86986715..86986725
+
Mm9::chr8:125717843..125717889,+p1@Dpep1
Mm9::chr8:125717900..125717912,+p3@Dpep1
Mm9::chr8:125717914..125717925,+p5@Dpep1
Mm9::chr9:118997325..118997398,-p@chr9:118997325..118997398
-
Mm9::chr9:14849550..14849579,-p2@Panx1
Mm9::chr9:65260724..65260741,+p@chr9:65260724..65260741
+
Mm9::chr9:95685948..95685955,-p@chr9:95685948..95685955
-
Mm9::chr9:98936098..98936137,-p1@Gm1123
Mm9::chr9:98936152..98936170,-p3@Gm1123
Mm9::chrX:45459962..45459971,+p@chrX:45459962..45459971
+
Mm9::chrX:45460027..45460041,+p@chrX:45460027..45460041
+
Mm9::chrX:45462068..45462083,+p2@Xpnpep2
Mm9::chrX:45462089..45462141,+p1@Xpnpep2
Mm9::chrX:45462172..45462183,+p3@Xpnpep2


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:0016805dipeptidase activity0.0235210137974477
GO:0046872metal ion binding0.0235210137974477
GO:0043167ion binding0.0235210137974477
GO:0008238exopeptidase activity0.0235210137974477
GO:0043169cation binding0.0357699606042344
GO:0015898amiloride transport0.0357699606042344
GO:0004339glucan 1,4-alpha-glucosidase activity0.0357699606042344
GO:0009068aspartate family amino acid catabolic process0.0357699606042344
GO:0006533aspartate catabolic process0.0357699606042344
GO:0006083acetate metabolic process0.0357699606042344
GO:0046108uridine metabolic process0.0357699606042344
GO:0008237metallopeptidase activity0.0466512051795597
GO:0019807aspartoacylase activity0.0466512051795597
GO:0006531aspartate metabolic process0.0466512051795597
GO:0004238meprin A activity0.0466512051795597
GO:0004850uridine phosphorylase activity0.0466512051795597
GO:0008235metalloexopeptidase activity0.0466512051795597



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)
MA0003.11.04916e-09
MA0004.10.753589
MA0006.10.00053868
MA0007.11.53964
MA0009.10.0873947
MA0014.12.86777e-07
MA0017.11.96439
MA0019.10.296166
MA0024.10.0705114
MA0025.10.208415
MA0027.11.45458
MA0028.10.0115568
MA0029.11.27549
MA0030.10.231951
MA0031.10.19752
MA0038.10.803338
MA0040.11.06602
MA0041.10.294092
MA0042.10.155819
MA0043.10.131537
MA0046.14.43168
MA0048.10.0113589
MA0050.11.58737
MA0051.14.08933
MA0052.10.318045
MA0055.10.0496841
MA0056.10
MA0057.10.0238829
MA0058.10.374538
MA0059.10.165266
MA0060.10.0446083
MA0061.10.00070806
MA0063.10
MA0066.10.763189
MA0067.10.281643
MA0068.10.458188
MA0069.10.318438
MA0070.10.0920389
MA0071.12.82025
MA0072.10.297689
MA0073.14.75944e-13
MA0074.10.232591
MA0076.10.00715791
MA0077.10.0798504
MA0078.10.203324
MA0081.10.336716
MA0083.10.131138
MA0084.11.33044
MA0087.10.356293
MA0088.10.408377
MA0089.10
MA0090.10.604984
MA0091.10.814037
MA0092.10.264106
MA0093.11.05037
MA0095.10
MA0098.10
MA0100.10.100403
MA0101.10.0164756
MA0103.10.16459
MA0105.10.000229012
MA0106.10.671714
MA0107.10.0170787
MA0108.20.14182
MA0109.10
MA0111.10.46057
MA0113.10.179197
MA0114.15.09165
MA0115.11.333
MA0116.10.000535758
MA0117.10.117124
MA0119.14.62585
MA0122.10.126741
MA0124.10.245485
MA0125.10.198482
MA0130.10
MA0131.10.0293268
MA0132.10
MA0133.10
MA0135.10.458972
MA0136.11.00551
MA0139.10.0210386
MA0140.14.42756
MA0141.11.09843
MA0142.10.184255
MA0143.10.0772871
MA0144.11.1334
MA0145.10.192849
MA0146.11.65767e-05
MA0147.10.0271173
MA0148.10.388672
MA0149.10.000599527
MA0062.20.000975997
MA0035.24.48984
MA0039.20.00385814
MA0138.20.515938
MA0002.20.260384
MA0137.20.199199
MA0104.20.0158296
MA0047.20.527366
MA0112.22.7967
MA0065.20.410823
MA0150.10.0105259
MA0151.10
MA0152.11.12701
MA0153.13.6444
MA0154.10.40409
MA0155.10.0533932
MA0156.10.179491
MA0157.10.0401663
MA0158.10
MA0159.10.713102
MA0160.10.598471
MA0161.10
MA0162.11.58111e-07
MA0163.11.33358e-05
MA0164.10.707463
MA0080.20.918931
MA0018.20.282334
MA0099.20.111138
MA0079.21.68757e-15
MA0102.20.583106
MA0258.11.66693
MA0259.10.00890037
MA0442.10
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