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MCL coexpression mm9:800: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005177!3.41e-18!79;UBERON:0009569!5.89e-16!66;UBERON:0002100!6.95e-14!90;UBERON:0005172!9.49e-12!49;UBERON:0005173!9.49e-12!49;UBERON:0002417!9.49e-12!49;UBERON:0000916!9.49e-12!49;UBERON:0000468!1.22e-08!333;UBERON:0000466!1.41e-08!79;UBERON:0002048!8.26e-08!14;UBERON:0000117!8.26e-08!14;UBERON:0000171!8.26e-08!14;UBERON:0000170!8.26e-08!14;UBERON:0005597!8.26e-08!14;UBERON:0000118!8.26e-08!14;UBERON:0000475!1.00e-07!150;UBERON:0004872!1.31e-07!33;UBERON:0005153!1.32e-07!17;UBERON:0003914!1.59e-07!47
|tfbs_overrepresentation_for_novel_motifs=0.354643,1.87011,0.330161,1.02163,0.227651,0.40827,0.495658,0.146465,0.468136,0.0330111,0.453212,0.484001,0.146657,0.507558,0.680035,0,0.696644,0.22065,0.829774,0.247067,0.296085,1.09871,0.50668,0.64218,0.337218,0.534339,0.801525,0.428336,0.268347,0.656973,0.414842,0.796599,1.17111,0.364174,0.242923,0.0500417,0.210533,0.480503,0.191662,0.167387,0.224094,0.419787,0.371854,0.244285,1.94357,0.383899,0.618203,0.443479,0.0330279,0.745859,0.679429,0.560572,0.0915709,0.937018,0.954342,0.514504,0.279148,0.471658,0.384731,0.512521,0.776777,0.569793,0.492158,0.668331,0.525334,0.708248,1.08987,1.43807,0.772155,1.29123,0.31262,2.07648,0.0512949,0.987652,0.371787,0.107966,1.20707,0.607043,0.759798,0.299972,0.152219,0.713779,0.568383,0.436063,0.873141,0.967095,0.231102,0.0965007,2.56197,1.60001,1.15927,0.878077,0.809272,0.232894,0.188213,0.991864,0.444003,0.812053,0.618454,1.47057,2.51789,0.796322,0.919715,0.680015,0.678976,1.07585,0.737915,0.439611,0.30446,0.297733,0.919252,0.921485,0.301014,1.15983,1.16629,0.222515,0.265919,1.02946,0.697928,0.207304,0.993019,0.647706,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,0.235546,0.90286,0.387557,1.05894,0.527782,1.18781,1.53664,0.362565,0.421136,1.13883,1.96797,1.5682,1.09456,1.35119,0.806961,0.672593,0.420221,0.621266,1.92834,0.364791,0.649035,0.32395,0.161645,0.938577,0.527659,1.3067,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,0.345891,0.669337,0.519673,0.602679,0.482466,0.976805
}}

Latest revision as of 15:54, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:95703982..95704018,+p2@Gngt2
Mm9::chr11:95704020..95704035,+p5@Gngt2
Mm9::chr15:75427054..75427073,+p2@Gpihbp1
Mm9::chr15:75427075..75427092,+p1@Gpihbp1
Mm9::chr18:61799257..61799286,+p1@LOC545261
Mm9::chr2:3031492..3031497,+p3@Fam171a1
Mm9::chr6:3954185..3954196,+p4@Gng11
Mm9::chr9:122026456..122026485,+p2@Snrk
Mm9::chr9:122026498..122026509,+p3@Snrk


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:0005834heterotrimeric G-protein complex0.00136621449799453
GO:0019897extrinsic to plasma membrane0.00158289096160373
GO:0019898extrinsic to membrane0.00201812338159081
GO:0008035high-density lipoprotein binding0.0118317262005294
GO:0044459plasma membrane part0.0247739886635087
GO:0031225anchored to membrane0.0247739886635087
GO:0046658anchored to plasma membrane0.0247739886635087
GO:0008034lipoprotein binding0.0256143454205485
GO:0005886plasma membrane0.0328245037506178



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
trunk region element3.41e-1879
subdivision of trunk5.89e-1666
trunk6.95e-1490
abdomen element9.49e-1249
abdominal segment element9.49e-1249
abdominal segment of trunk9.49e-1249
abdomen9.49e-1249
multi-cellular organism1.22e-08333
immaterial anatomical entity1.41e-0879
lung8.26e-0814
respiratory tube8.26e-0814
respiration organ8.26e-0814
pair of lungs8.26e-0814
lung primordium8.26e-0814
lung bud8.26e-0814
organism subdivision1.00e-07150
splanchnic layer of lateral plate mesoderm1.31e-0733
epithelial bud1.32e-0717
epithelial tube1.59e-0747


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)
MA0003.10.458525
MA0004.10.394951
MA0006.10.238555
MA0007.10.38073
MA0009.10.82278
MA0014.10.119217
MA0017.10.26239
MA0019.10.642876
MA0024.10.779446
MA0025.11.05446
MA0027.12.46647
MA0028.10.24786
MA0029.10.757957
MA0030.10.764448
MA0031.10.729293
MA0038.10.534262
MA0040.10.835181
MA0041.10.323687
MA0042.10.311486
MA0043.10.918718
MA0046.10.858391
MA0048.10.589612
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.10.424109
MA0056.10
MA0057.10.258928
MA0058.10.305206
MA0059.10.849123
MA0060.10.169058
MA0061.11.07655
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.563625
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.14.71947
MA0074.10.488775
MA0076.10.279739
MA0077.13.13596
MA0078.10.575205
MA0081.10.897217
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.10.413524
MA0089.10
MA0090.10.951436
MA0091.10.407455
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.10.477594
MA0101.12.37284
MA0103.10.748482
MA0105.10.109964
MA0106.10.582805
MA0107.11.35172
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.10.561811
MA0115.10.921497
MA0116.10.238371
MA0117.10.88947
MA0119.10.868953
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.10.954884
MA0136.10.508047
MA0139.10.143341
MA0140.10.477483
MA0141.10.789442
MA0142.10.714976
MA0143.11.40057
MA0144.10.195095
MA0145.10.77191
MA0146.11.09957
MA0147.10.205697
MA0148.10.410398
MA0149.10.330018
MA0062.20.365726
MA0035.20.482026
MA0039.22.7644
MA0138.21.52535
MA0002.20.145685
MA0137.20.287486
MA0104.20.157347
MA0047.20.533516
MA0112.21.17898
MA0065.20.44341
MA0150.10.380623
MA0151.10
MA0152.11.32101
MA0153.10.971406
MA0154.10.581988
MA0155.10.490492
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.10.348617
MA0163.10.0600297
MA0164.11.26737
MA0080.20.737531
MA0018.20.51781
MA0099.20.624421
MA0079.23.31089
MA0102.21.5442
MA0258.12.30311
MA0259.10.196451
MA0442.10
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