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MCL coexpression mm9:586: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004119!1.57e-12!118;UBERON:0000925!1.57e-12!118;UBERON:0006595!1.57e-12!118;UBERON:0002193!2.49e-12!48;UBERON:0002405!2.49e-12!48;UBERON:0001007!6.58e-12!116;UBERON:0001555!6.58e-12!116;UBERON:0007026!6.58e-12!116;UBERON:0002204!1.49e-11!32;UBERON:0002384!3.51e-11!46;UBERON:0004921!4.43e-11!114;UBERON:0002390!6.31e-11!45;UBERON:0003061!6.31e-11!45;UBERON:0003081!9.15e-09!87;UBERON:0004923!1.84e-08!24;UBERON:0000490!4.26e-08!66;UBERON:0001474!1.52e-07!22;UBERON:0004765!1.52e-07!22;UBERON:0001434!1.52e-07!22;UBERON:0002371!2.78e-07!16;UBERON:0000926!3.79e-07!120;UBERON:0004120!3.79e-07!120;UBERON:0006603!3.79e-07!120
|ontology_enrichment_uberon=UBERON:0004119!1.57e-12!118;UBERON:0000925!1.57e-12!118;UBERON:0006595!1.57e-12!118;UBERON:0002193!2.49e-12!48;UBERON:0002405!2.49e-12!48;UBERON:0001007!6.58e-12!116;UBERON:0001555!6.58e-12!116;UBERON:0007026!6.58e-12!116;UBERON:0002204!1.49e-11!32;UBERON:0002384!3.51e-11!46;UBERON:0004921!4.43e-11!114;UBERON:0002390!6.31e-11!45;UBERON:0003061!6.31e-11!45;UBERON:0003081!9.15e-09!87;UBERON:0004923!1.84e-08!24;UBERON:0000490!4.26e-08!66;UBERON:0001474!1.52e-07!22;UBERON:0004765!1.52e-07!22;UBERON:0001434!1.52e-07!22;UBERON:0002371!2.78e-07!16;UBERON:0000926!3.79e-07!120;UBERON:0004120!3.79e-07!120;UBERON:0006603!3.79e-07!120
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.110566,0.686572,0.303186,0.474017,0.315748,0.396495,0.303924,0.658686,1.58153,0.357058,0.385627,0.0909495,1.05028,0.169024,0,0.587245,0.150639,0.586013,0.0359435,0.215242,0.0948826,1.04849,0.155356,0.701128,0.432737,0.561494,0.888376,0.558665,0.198166,1.55163,0.683831,0.14899,0.234079,2.21658,0.056009,0.438297,0.382372,0.398832,0.707364,0.466602,0.326286,0.0834993,0.170547,1.61024,0.797213,0.512146,0.34807,0.169751,0.564214,0.570705,0.457464,0.419161,0.82076,0.837732,0.414119,0.200484,0.977003,0.0716833,0.412262,0.664611,0.46618,0.340458,0.560059,1.08652,0.598412,0.970969,1.3158,0.660133,1.17005,0.650349,0.0945081,0.102623,0.870406,0.51601,0.835139,0.233965,1.2527,0.648171,1.171,0.0952669,2.49986,0.464847,0.0868537,0.758319,1.89219,0.0395547,0.053731,0.516731,1.47691,1.03946,0.763136,0.696137,0.16091,0.12392,0.11194,0.299765,0.698838,0.512384,0.67526,0.142282,0.683562,0.803823,0.571268,0.57027,0.3259,1.51783,0.344504,1.84928,1.16343,0.723377,0.805555,0.219561,1.69217,1.04639,0.463309,0.734682,0.826326,0.58848,0.139554,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.163147,0.787341,0.804729,0.940498,0.426575,1.06766,0.231689,1.38011,0.327523,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.477267,0.201988,0.209642,0.822286,0.115938,0.425729,0.901933,0.458393,0.178202,0.265096,0.752802,1.02862,0.757491,0.652135,0.719007,0.561023,0.418964,0.141416,0.384198,0.556474
|tfbs_overrepresentation_for_novel_motifs=0.267173,0.110566,0.686572,0.303186,0.474017,0.315748,0.396495,0.303924,0.658686,1.58153,0.357058,0.385627,0.0909495,1.05028,0.169024,0,0.587245,0.150639,0.586013,0.0359435,0.215242,0.0948826,1.04849,0.155356,0.701128,0.432737,0.561494,0.888376,0.558665,0.198166,1.55163,0.683831,0.14899,0.234079,2.21658,0.056009,0.438297,0.382372,0.398832,0.707364,0.466602,0.326286,0.0834993,0.170547,1.61024,0.797213,0.512146,0.34807,0.169751,0.564214,0.570705,0.457464,0.419161,0.82076,0.837732,0.414119,0.200484,0.977003,0.0716833,0.412262,0.664611,0.46618,0.340458,0.560059,1.08652,0.598412,0.970969,1.3158,0.660133,1.17005,0.650349,0.0945081,0.102623,0.870406,0.51601,0.835139,0.233965,1.2527,0.648171,1.171,0.0952669,2.49986,0.464847,0.0868537,0.758319,1.89219,0.0395547,0.053731,0.516731,1.47691,1.03946,0.763136,0.696137,0.16091,0.12392,0.11194,0.299765,0.698838,0.512384,0.67526,0.142282,0.683562,0.803823,0.571268,0.57027,0.3259,1.51783,0.344504,1.84928,1.16343,0.723377,0.805555,0.219561,1.69217,1.04639,0.463309,0.734682,0.826326,0.58848,0.139554,0.875675,0.540309,0.434408,0.500675,1.09972,0.651709,0.403884,0.689622,0.969481,0.163147,0.787341,0.804729,0.940498,0.426575,1.06766,0.231689,1.38011,0.327523,1.01927,1.84381,1.44523,0.975592,0.445463,0.693891,0.564145,0.326684,0.515065,1.80426,0.276297,0.477267,0.201988,0.209642,0.822286,0.115938,0.425729,0.901933,0.458393,0.178202,0.265096,0.752802,1.02862,0.757491,0.652135,0.719007,0.561023,0.418964,0.141416,0.384198,0.556474
|tfbs_overrepresentation_jaspar=MA0003.1;1.32625,MA0004.1;0.819913,MA0006.1;0.16569,MA0007.1;2.20305,MA0009.1;0.709264,MA0014.1;1.0426,MA0017.1;0.186015,MA0019.1;0.535691,MA0024.1;0.667197,MA0025.1;0.936082,MA0027.1;2.34178,MA0028.1;4.66798,MA0029.1;0.64639,MA0030.1;0.65267,MA0031.1;0.618697,MA0038.1;0.432665,MA0040.1;0.721328,MA0041.1;0.239557,MA0042.1;0.228771,MA0043.1;0.802848,MA0046.1;0.743934,MA0048.1;1.05335,MA0050.1;1.60735,MA0051.1;1.96346,MA0052.1;0.729105,MA0055.1;0.10681,MA0056.1;0,MA0057.1;0.151898,MA0058.1;0.635024,MA0059.1;0.658541,MA0060.1;2.33861,MA0061.1;0.129002,MA0063.1;0,MA0066.1;0.422624,MA0067.1;1.04514,MA0068.1;0.361347,MA0069.1;0.729433,MA0070.1;0.720077,MA0071.1;0.336739,MA0072.1;0.711905,MA0073.1;0.0019272,MA0074.1;0.390075,MA0076.1;3.24198,MA0077.1;0.691048,MA0078.1;0.471303,MA0081.1;0.252371,MA0083.1;0.802078,MA0084.1;1.3693,MA0087.1;0.760279,MA0088.1;0.459114,MA0089.1;0,MA0090.1;0.27428,MA0091.1;0.315003,MA0092.1;0.753925,MA0093.1;0.531567,MA0095.1;0,MA0098.1;0,MA0100.1;0.379666,MA0101.1;0.675688,MA0103.1;0.19444,MA0105.1;0.0633795,MA0106.1;0.478503,MA0107.1;0.189625,MA0108.2;0.557195,MA0109.1;0,MA0111.1;0.78079,MA0113.1;0.452439,MA0114.1;0.127366,MA0115.1;0.805567,MA0116.1;0.165534,MA0117.1;0.774259,MA0119.1;0.241106,MA0122.1;0.793507,MA0124.1;0.992825,MA0125.1;0.920215,MA0130.1;0,MA0131.1;1.31636,MA0132.1;0,MA0133.1;0,MA0135.1;0.838263,MA0136.1;0.408073,MA0139.1;0.61859,MA0140.1;0.379562,MA0141.1;0.210047,MA0142.1;0.604892,MA0143.1;0.467531,MA0144.1;0.406018,MA0145.1;0.264944,MA0146.1;1.54841,MA0147.1;0.138228,MA0148.1;0.317692,MA0149.1;0.245177,MA0062.2;7.65353,MA0035.2;0.383789,MA0039.2;3.347,MA0138.2;0.523978,MA0002.2;0.302282,MA0137.2;1.1287,MA0104.2;0.326825,MA0047.2;0.431964,MA0112.2;0.264932,MA0065.2;0.265926,MA0150.1;0.290598,MA0151.1;0,MA0152.1;0.432062,MA0153.1;0.854464,MA0154.1;0.16541,MA0155.1;0.0312913,MA0156.1;1.09965,MA0157.1;0.574484,MA0158.1;0,MA0159.1;0.446593,MA0160.1;0.320315,MA0161.1;0,MA0162.1;1.72487,MA0163.1;0.467206,MA0164.1;0.408402,MA0080.2;0.190316,MA0018.2;1.07118,MA0099.2;0.518072,MA0079.2;1.1883,MA0102.2;1.42135,MA0258.1;0.376353,MA0259.1;0.408856,MA0442.1;0
}}
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Revision as of 11:59, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:117282994..117283005,-p2@Rap1b
Mm9::chr10:117283015..117283065,-p1@Rap1b
Mm9::chr10:83006757..83006768,+p2@A230046K03Rik
Mm9::chr11:100800671..100800770,-p1@Stat3
Mm9::chr11:97564708..97564769,+p1@LOC100505005
p1@Psmb3
Mm9::chr16:76403918..76403962,-p1@Gm9843
p2@Fau
Mm9::chr18:12287361..12287377,+p3@Riok3
Mm9::chr1:9738328..9738353,-p3@Vcpip1
Mm9::chr3:145587267..145587342,+p1@Bcl10
Mm9::chr3:95462693..95462709,+p1@Mcl1
Mm9::chr6:83276023..83276058,+p1@Mob1a
Mm9::chrX:151650881..151650912,-p1@Sat1


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:0019532oxalate transport0.0498548183860188
GO:0019531oxalate transmembrane transporter activity0.0498548183860188



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>

Uber Anatomy
Ontology termp-valuen
endoderm-derived structure1.57e-12118
endoderm1.57e-12118
presumptive endoderm1.57e-12118
hemolymphoid system2.49e-1248
immune system2.49e-1248
digestive system6.58e-12116
digestive tract6.58e-12116
primitive gut6.58e-12116
musculoskeletal system1.49e-1132
connective tissue3.51e-1146
subdivision of digestive tract4.43e-11114
hematopoietic system6.31e-1145
blood island6.31e-1145
lateral plate mesoderm9.15e-0987
organ component layer1.84e-0824
unilaminar epithelium4.26e-0866
bone element1.52e-0722
skeletal element1.52e-0722
skeletal system1.52e-0722
bone marrow2.78e-0716
mesoderm3.79e-07120
mesoderm-derived structure3.79e-07120
presumptive mesoderm3.79e-07120


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)
MA0003.11.32625
MA0004.10.819913
MA0006.10.16569
MA0007.12.20305
MA0009.10.709264
MA0014.11.0426
MA0017.10.186015
MA0019.10.535691
MA0024.10.667197
MA0025.10.936082
MA0027.12.34178
MA0028.14.66798
MA0029.10.64639
MA0030.10.65267
MA0031.10.618697
MA0038.10.432665
MA0040.10.721328
MA0041.10.239557
MA0042.10.228771
MA0043.10.802848
MA0046.10.743934
MA0048.11.05335
MA0050.11.60735
MA0051.11.96346
MA0052.10.729105
MA0055.10.10681
MA0056.10
MA0057.10.151898
MA0058.10.635024
MA0059.10.658541
MA0060.12.33861
MA0061.10.129002
MA0063.10
MA0066.10.422624
MA0067.11.04514
MA0068.10.361347
MA0069.10.729433
MA0070.10.720077
MA0071.10.336739
MA0072.10.711905
MA0073.10.0019272
MA0074.10.390075
MA0076.13.24198
MA0077.10.691048
MA0078.10.471303
MA0081.10.252371
MA0083.10.802078
MA0084.11.3693
MA0087.10.760279
MA0088.10.459114
MA0089.10
MA0090.10.27428
MA0091.10.315003
MA0092.10.753925
MA0093.10.531567
MA0095.10
MA0098.10
MA0100.10.379666
MA0101.10.675688
MA0103.10.19444
MA0105.10.0633795
MA0106.10.478503
MA0107.10.189625
MA0108.20.557195
MA0109.10
MA0111.10.78079
MA0113.10.452439
MA0114.10.127366
MA0115.10.805567
MA0116.10.165534
MA0117.10.774259
MA0119.10.241106
MA0122.10.793507
MA0124.10.992825
MA0125.10.920215
MA0130.10
MA0131.11.31636
MA0132.10
MA0133.10
MA0135.10.838263
MA0136.10.408073
MA0139.10.61859
MA0140.10.379562
MA0141.10.210047
MA0142.10.604892
MA0143.10.467531
MA0144.10.406018
MA0145.10.264944
MA0146.11.54841
MA0147.10.138228
MA0148.10.317692
MA0149.10.245177
MA0062.27.65353
MA0035.20.383789
MA0039.23.347
MA0138.20.523978
MA0002.20.302282
MA0137.21.1287
MA0104.20.326825
MA0047.20.431964
MA0112.20.264932
MA0065.20.265926
MA0150.10.290598
MA0151.10
MA0152.10.432062
MA0153.10.854464
MA0154.10.16541
MA0155.10.0312913
MA0156.11.09965
MA0157.10.574484
MA0158.10
MA0159.10.446593
MA0160.10.320315
MA0161.10
MA0162.11.72487
MA0163.10.467206
MA0164.10.408402
MA0080.20.190316
MA0018.21.07118
MA0099.20.518072
MA0079.21.1883
MA0102.21.42135
MA0258.10.376353
MA0259.10.408856
MA0442.10
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