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MCL coexpression mm9:137: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002384!6.30e-12!46;UBERON:0000485!2.91e-09!11;UBERON:0003350!5.57e-09!9;UBERON:0004808!5.57e-09!9;UBERON:0001277!5.57e-09!9
|ontology_enrichment_uberon=UBERON:0002384!6.30e-12!46;UBERON:0000485!2.91e-09!11;UBERON:0003350!5.57e-09!9;UBERON:0004808!5.57e-09!9;UBERON:0001277!5.57e-09!9
|tfbs_overrepresentation_for_novel_motifs=0.33588,0.241475,0.851122,0.278262,0.0756143,0.168795,0.316102,0.0244883,1.65662,0.146249,0.113816,0.293966,0.413772,0.569278,0.270545,0,0.794651,0.12299,0.918204,0.160103,1.14742,1.22169,0.0643812,0.842161,0.65252,0.0176116,0.208161,0.356131,0.233725,0.132074,1.04893,0.651782,0.197757,0.295535,1.49992,0.0287324,0.175394,0.287466,0.128761,0.917079,0.129773,0.535364,0.263237,0.173402,0.623766,0.63062,0.323702,0.616821,0.821158,0.371166,0.747588,0.238593,1.35619,0.166029,0.175998,0.35339,0.158174,0.71913,0.349948,0.349381,0.293192,0.472796,0.400818,1.10482,0.0745926,0.478358,0.262143,0.533111,0.601895,0.411902,0.22913,0.748434,0.131766,0.195869,0.0353808,0.73995,0.056882,0.560933,0.274118,0.0517778,0.45256,0.488631,0.101493,0.503486,0.411198,0.132765,0.00645678,1.26107,0.942416,0.675001,0.836989,0.417657,0.678177,0.00510981,0.121045,0.230773,0.680823,0.684014,0.138547,1.52662,0.10432,0.315815,0.921824,0.192237,0.425415,0.533954,0.911206,0.872022,0.210633,0.195957,1.2452,1.48139,0.329103,1.67362,0.848501,0.126639,0.0765899,0.464685,0.798199,0.524416,0.199153,0.162973,0.206133,0.128881,0.356589,0.584476,0.331531,0.0979203,2.8637,0.248221,0.147133,0.140568,0.241295,0.380739,0.332187,0.0167863,0.213016,0.338852,0.803703,1.01733,0.646575,0.265361,0.423704,0.328423,0.729167,0.784992,0.328546,0.979551,0.364383,0.22863,0.37387,0.0484124,0.166915,0.831661,0.194476,0.215846,0.239945,0.828245,0.0406734,1.34902,0.819083,0.814387,0.987074,0.182313,0.182306,0.363932,0.538171,0.143162,2.14074
|tfbs_overrepresentation_for_novel_motifs=0.33588,0.241475,0.851122,0.278262,0.0756143,0.168795,0.316102,0.0244883,1.65662,0.146249,0.113816,0.293966,0.413772,0.569278,0.270545,0,0.794651,0.12299,0.918204,0.160103,1.14742,1.22169,0.0643812,0.842161,0.65252,0.0176116,0.208161,0.356131,0.233725,0.132074,1.04893,0.651782,0.197757,0.295535,1.49992,0.0287324,0.175394,0.287466,0.128761,0.917079,0.129773,0.535364,0.263237,0.173402,0.623766,0.63062,0.323702,0.616821,0.821158,0.371166,0.747588,0.238593,1.35619,0.166029,0.175998,0.35339,0.158174,0.71913,0.349948,0.349381,0.293192,0.472796,0.400818,1.10482,0.0745926,0.478358,0.262143,0.533111,0.601895,0.411902,0.22913,0.748434,0.131766,0.195869,0.0353808,0.73995,0.056882,0.560933,0.274118,0.0517778,0.45256,0.488631,0.101493,0.503486,0.411198,0.132765,0.00645678,1.26107,0.942416,0.675001,0.836989,0.417657,0.678177,0.00510981,0.121045,0.230773,0.680823,0.684014,0.138547,1.52662,0.10432,0.315815,0.921824,0.192237,0.425415,0.533954,0.911206,0.872022,0.210633,0.195957,1.2452,1.48139,0.329103,1.67362,0.848501,0.126639,0.0765899,0.464685,0.798199,0.524416,0.199153,0.162973,0.206133,0.128881,0.356589,0.584476,0.331531,0.0979203,2.8637,0.248221,0.147133,0.140568,0.241295,0.380739,0.332187,0.0167863,0.213016,0.338852,0.803703,1.01733,0.646575,0.265361,0.423704,0.328423,0.729167,0.784992,0.328546,0.979551,0.364383,0.22863,0.37387,0.0484124,0.166915,0.831661,0.194476,0.215846,0.239945,0.828245,0.0406734,1.34902,0.819083,0.814387,0.987074,0.182313,0.182306,0.363932,0.538171,0.143162,2.14074
|tfbs_overrepresentation_jaspar=MA0003.1;0.22858,MA0004.1;0.941692,MA0006.1;0.540427,MA0007.1;0.0568791,MA0009.1;1.16544,MA0014.1;1.16831,MA0017.1;0.0286985,MA0019.1;0.0408682,MA0024.1;0.0879881,MA0025.1;1.24612,MA0027.1;1.50261,MA0028.1;2.55303,MA0029.1;0.272083,MA0030.1;0.988709,MA0031.1;0.517881,MA0038.1;0.203768,MA0040.1;0.362826,MA0041.1;0.00755838,MA0042.1;0.0606078,MA0043.1;1.47228,MA0046.1;0.124121,MA0048.1;0.667576,MA0050.1;0.837392,MA0051.1;1.00099,MA0052.1;0.750453,MA0055.1;0.00873892,MA0056.1;0,MA0057.1;1.53647,MA0058.1;1.85392,MA0059.1;0.55839,MA0060.1;0.935063,MA0061.1;2.70147,MA0063.1;0,MA0066.1;1.28006,MA0067.1;1.52889,MA0068.1;0.367227,MA0069.1;0.116836,MA0070.1;0.361229,MA0071.1;0.203099,MA0072.1;0.712469,MA0073.1;8.20635e-05,MA0074.1;0.515164,MA0076.1;3.92513,MA0077.1;0.324933,MA0078.1;0.10618,MA0081.1;0.656656,MA0083.1;2.82094,MA0084.1;0.579437,MA0087.1;0.132577,MA0088.1;0.0207196,MA0089.1;0,MA0090.1;0.545712,MA0091.1;0.494734,MA0092.1;0.358846,MA0093.1;1.63762,MA0095.1;0,MA0098.1;0,MA0100.1;0.28211,MA0101.1;3.30588,MA0103.1;0.0338816,MA0105.1;2.30803,MA0106.1;0.502922,MA0107.1;3.68053,MA0108.2;1.09387,MA0109.1;0,MA0111.1;0.598304,MA0113.1;0.440011,MA0114.1;0.437041,MA0115.1;0.157315,MA0116.1;1.18101,MA0117.1;1.98691,MA0119.1;0.147954,MA0122.1;0.150545,MA0124.1;0.277477,MA0125.1;0.227776,MA0130.1;0,MA0131.1;0.356235,MA0132.1;0,MA0133.1;0,MA0135.1;0.176314,MA0136.1;1.59241,MA0139.1;0.0440947,MA0140.1;0.740966,MA0141.1;0.0975542,MA0142.1;0.226491,MA0143.1;0.103429,MA0144.1;8.12708,MA0145.1;1.11274,MA0146.1;0.170682,MA0147.1;0.371075,MA0148.1;0.742087,MA0149.1;0.0766151,MA0062.2;4.39926,MA0035.2;0.496234,MA0039.2;2.3031,MA0138.2;0.148455,MA0002.2;0.0832879,MA0137.2;7.23721,MA0104.2;1.00479,MA0047.2;2.21564,MA0112.2;1.28453,MA0065.2;0.560823,MA0150.1;0.866706,MA0151.1;0,MA0152.1;0.962336,MA0153.1;0.186064,MA0154.1;0.643885,MA0155.1;0.876659,MA0156.1;3.91041,MA0157.1;0.195405,MA0158.1;0,MA0159.1;0.750891,MA0160.1;0.176004,MA0161.1;0,MA0162.1;0.343073,MA0163.1;0.16936,MA0164.1;0.571748,MA0080.2;2.11047,MA0018.2;1.65264,MA0099.2;1.35587,MA0079.2;2.45945,MA0102.2;0.625296,MA0258.1;1.06532,MA0259.1;0.459987,MA0442.1;0
}}
}}

Revision as of 11:14, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:67000133..67000144,-p@chr10:67000133..67000144
-
Mm9::chr10:79538327..79538350,+p@chr10:79538327..79538350
+
Mm9::chr10:94407469..94407496,-p1@Plxnc1
Mm9::chr10:94407499..94407525,-p3@Plxnc1
Mm9::chr11:115138735..115138743,+p@chr11:115138735..115138743
+
Mm9::chr11:30671660..30671679,-p@chr11:30671660..30671679
-
Mm9::chr11:68666797..68666842,+p@chr11:68666797..68666842
+
Mm9::chr11:68667555..68667558,-p@chr11:68667555..68667558
-
Mm9::chr11:68911233..68911246,+p@chr11:68911233..68911246
+
Mm9::chr11:69223272..69223281,+p@chr11:69223272..69223281
+
Mm9::chr11:69223300..69223314,+p@chr11:69223300..69223314
+
Mm9::chr11:69223898..69223934,-p@chr11:69223898..69223934
-
Mm9::chr11:69224053..69224084,+p@chr11:69224053..69224084
+
Mm9::chr11:87031216..87031260,-p@chr11:87031216..87031260
-
Mm9::chr11:93856674..93856698,+p@chr11:93856674..93856698
+
Mm9::chr11:93857095..93857128,-p@chr11:93857095..93857128
-
Mm9::chr12:70784685..70784698,-p@chr12:70784685..70784698
-
Mm9::chr12:80397424..80397437,+p@chr12:80397424..80397437
+
Mm9::chr12:8506807..8506823,-p1@Rhob
Mm9::chr12:86814833..86814846,+p1@Fos
Mm9::chr12:86818215..86818223,-p@chr12:86818215..86818223
-
Mm9::chr12:86826741..86826757,-p@chr12:86826741..86826757
-
Mm9::chr12:86826930..86826944,-p@chr12:86826930..86826944
-
Mm9::chr12:86827179..86827199,+p@chr12:86827179..86827199
+
Mm9::chr13:111328639..111328642,+p@chr13:111328639..111328642
+
Mm9::chr13:114660879..114660896,+p@chr13:114660879..114660896
+
Mm9::chr13:60839512..60839523,+p@chr13:60839512..60839523
+
Mm9::chr14:47441705..47441736,-p@chr14:47441705..47441736
-
Mm9::chr14:76234296..76234319,+p@chr14:76234296..76234319
+
Mm9::chr15:102235935..102235952,-p@chr15:102235935..102235952
-
Mm9::chr15:78279810..78279816,+p@chr15:78279810..78279816
+
Mm9::chr16:35939947..35939958,+p@chr16:35939947..35939958
+
Mm9::chr17:17975421..17975439,+p@chr17:17975421..17975439
+
Mm9::chr17:27962982..27962989,-p@chr17:27962982..27962989
-
Mm9::chr17:35188770..35188792,-p@chr17:35188770..35188792
-
Mm9::chr18:4353059..4353070,+p1@4833419F23Rik
Mm9::chr18:4353606..4353629,+p1@uc008dyg.1
Mm9::chr19:5802809..5802814,+p@chr19:5802809..5802814
+
Mm9::chr19:5846865..5846886,+p@chr19:5846865..5846886
+
Mm9::chr19:5846964..5846989,+p@chr19:5846964..5846989
+
Mm9::chr19:60657149..60657166,+p@chr19:60657149..60657166
+
Mm9::chr1:135996014..135996060,+p@chr1:135996014..135996060
+
Mm9::chr1:155596836..155596876,+p@chr1:155596836..155596876
+
Mm9::chr1:156992980..156992985,+p@chr1:156992980..156992985
+
Mm9::chr1:157884525..157884544,-p@chr1:157884525..157884544
-
Mm9::chr1:182333874..182333879,-p@chr1:182333874..182333879
-
Mm9::chr1:186556663..186556683,+p@chr1:186556663..186556683
+
Mm9::chr1:193048790..193048848,-p@chr1:193048790..193048848
-
Mm9::chr1:36365112..36365126,+p@chr1:36365112..36365126
+
Mm9::chr1:66862781..66862793,+p@chr1:66862781..66862793
+
Mm9::chr2:154483708..154483724,-p@chr2:154483708..154483724
-
Mm9::chr2:167415048..167415059,+p@chr2:167415048..167415059
+
Mm9::chr2:29682546..29682564,-p@chr2:29682546..29682564
-
Mm9::chr4:100964854..100964883,+p@chr4:100964854..100964883
+
Mm9::chr4:135432842..135432855,+p@chr4:135432842..135432855
+
Mm9::chr4:143002905..143002917,+p2@Pramef8
Mm9::chr4:151236286..151236328,+p@chr4:151236286..151236328
+
Mm9::chr4:94719548..94719564,+p3@ENSMUST00000125917
Mm9::chr5:115950651..115950658,+p@chr5:115950651..115950658
+
Mm9::chr5:125873365..125873385,-p@chr5:125873365..125873385
-
Mm9::chr5:139960635..139960675,+p@chr5:139960635..139960675
+
Mm9::chr5:24083536..24083578,+p@chr5:24083536..24083578
+
Mm9::chr6:134741498..134741518,+p@chr6:134741498..134741518
+
Mm9::chr6:28371527..28371542,-p3@Gcc1
Mm9::chr6:28371564..28371592,-p2@Gcc1
Mm9::chr6:29222492..29222506,-p@chr6:29222492..29222506
-
Mm9::chr7:108599890..108599904,+p4@Pde2a
Mm9::chr7:20401962..20401980,+p2@ENSMUST00000137373
Mm9::chr7:20403066..20403081,+p@chr7:20403066..20403081
+
Mm9::chr7:29157949..29157990,+p@chr7:29157949..29157990
+
Mm9::chr7:29166311..29166316,-p@chr7:29166311..29166316
-
Mm9::chr8:11476989..11477002,+p@chr8:11476989..11477002
+
Mm9::chr8:11477004..11477016,+p@chr8:11477004..11477016
+
Mm9::chr8:11477018..11477030,+p@chr8:11477018..11477030
+
Mm9::chr8:73134289..73134311,+p@chr8:73134289..73134311
+
Mm9::chr8:73197637..73197658,+p@chr8:73197637..73197658
+
Mm9::chr8:74792504..74792517,+p@chr8:74792504..74792517
+
Mm9::chr8:86721574..86721579,-p@chr8:86721574..86721579
-
Mm9::chr8:86725665..86725692,+p@chr8:86725665..86725692
+
Mm9::chr8:87500645..87500656,+p@chr8:87500645..87500656
+
Mm9::chr9:121223398..121223435,+p@chr9:121223398..121223435
+
Mm9::chr9:121627976..121628010,-p@chr9:121627976..121628010
-
Mm9::chr9:65427027..65427038,+p@chr9:65427027..65427038
+
Mm9::chrX:163527091..163527099,+p@chrX:163527091..163527099
+


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

no results for this coexpression

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>disease_data<br>

Cell Type
Ontology termp-valuen
hematopoietic cell4.98e-1532
hematopoietic oligopotent progenitor cell4.98e-1532
hematopoietic stem cell4.98e-1532
angioblastic mesenchymal cell4.98e-1532
hematopoietic multipotent progenitor cell4.98e-1532
connective tissue cell6.30e-1246
mesenchymal cell6.30e-1246
stem cell7.63e-1297
lymphoid lineage restricted progenitor cell1.35e-1112
lymphocyte1.48e-1013
common lymphoid progenitor1.48e-1013
motile cell1.95e-1054
T cell4.79e-1011
pro-T cell4.79e-1011
somatic stem cell9.02e-1091
multi fate stem cell9.02e-1091
somatic cell1.31e-09118
intestinal epithelial cell5.57e-099
epithelial cell of alimentary canal5.57e-099
nucleate cell3.15e-0816
hematopoietic lineage restricted progenitor cell3.17e-0825
leukocyte1.23e-0717
nongranular leukocyte1.23e-0717
animal cell2.44e-07115
eukaryotic cell2.44e-07115
mature alpha-beta T cell2.64e-079
alpha-beta T cell2.64e-079
immature T cell2.64e-079
mature T cell2.64e-079
immature alpha-beta T cell2.64e-079

Uber Anatomy
Ontology termp-valuen
connective tissue6.30e-1246
simple columnar epithelium2.91e-0911
epithelium of mucosa5.57e-099
gastrointestinal system epithelium5.57e-099
intestinal epithelium5.57e-099

Disease
Ontology termp-valuen
musculoskeletal system cancer2.34e-073
muscle cancer2.34e-073


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)
MA0003.10.22858
MA0004.10.941692
MA0006.10.540427
MA0007.10.0568791
MA0009.11.16544
MA0014.11.16831
MA0017.10.0286985
MA0019.10.0408682
MA0024.10.0879881
MA0025.11.24612
MA0027.11.50261
MA0028.12.55303
MA0029.10.272083
MA0030.10.988709
MA0031.10.517881
MA0038.10.203768
MA0040.10.362826
MA0041.10.00755838
MA0042.10.0606078
MA0043.11.47228
MA0046.10.124121
MA0048.10.667576
MA0050.10.837392
MA0051.11.00099
MA0052.10.750453
MA0055.10.00873892
MA0056.10
MA0057.11.53647
MA0058.11.85392
MA0059.10.55839
MA0060.10.935063
MA0061.12.70147
MA0063.10
MA0066.11.28006
MA0067.11.52889
MA0068.10.367227
MA0069.10.116836
MA0070.10.361229
MA0071.10.203099
MA0072.10.712469
MA0073.18.20635e-05
MA0074.10.515164
MA0076.13.92513
MA0077.10.324933
MA0078.10.10618
MA0081.10.656656
MA0083.12.82094
MA0084.10.579437
MA0087.10.132577
MA0088.10.0207196
MA0089.10
MA0090.10.545712
MA0091.10.494734
MA0092.10.358846
MA0093.11.63762
MA0095.10
MA0098.10
MA0100.10.28211
MA0101.13.30588
MA0103.10.0338816
MA0105.12.30803
MA0106.10.502922
MA0107.13.68053
MA0108.21.09387
MA0109.10
MA0111.10.598304
MA0113.10.440011
MA0114.10.437041
MA0115.10.157315
MA0116.11.18101
MA0117.11.98691
MA0119.10.147954
MA0122.10.150545
MA0124.10.277477
MA0125.10.227776
MA0130.10
MA0131.10.356235
MA0132.10
MA0133.10
MA0135.10.176314
MA0136.11.59241
MA0139.10.0440947
MA0140.10.740966
MA0141.10.0975542
MA0142.10.226491
MA0143.10.103429
MA0144.18.12708
MA0145.11.11274
MA0146.10.170682
MA0147.10.371075
MA0148.10.742087
MA0149.10.0766151
MA0062.24.39926
MA0035.20.496234
MA0039.22.3031
MA0138.20.148455
MA0002.20.0832879
MA0137.27.23721
MA0104.21.00479
MA0047.22.21564
MA0112.21.28453
MA0065.20.560823
MA0150.10.866706
MA0151.10
MA0152.10.962336
MA0153.10.186064
MA0154.10.643885
MA0155.10.876659
MA0156.13.91041
MA0157.10.195405
MA0158.10
MA0159.10.750891
MA0160.10.176004
MA0161.10
MA0162.10.343073
MA0163.10.16936
MA0164.10.571748
MA0080.22.11047
MA0018.21.65264
MA0099.21.35587
MA0079.22.45945
MA0102.20.625296
MA0258.11.06532
MA0259.10.459987
MA0442.10
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