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MCL coexpression mm9:764: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_uberon=UBERON:0000160!9.11e-21!31;UBERON:0005409!5.34e-18!47;UBERON:0002107!1.74e-11!22;UBERON:0007499!1.74e-11!22;UBERON:0006925!1.74e-11!22;UBERON:0009497!1.74e-11!22;UBERON:0000015!1.74e-11!22;UBERON:0002423!1.74e-11!22;UBERON:0006235!1.74e-11!22;UBERON:0008835!1.74e-11!22;UBERON:0003894!1.74e-11!22;UBERON:0004161!1.74e-11!22;UBERON:0008836!1.74e-11!22;UBERON:0000344!1.87e-11!15;UBERON:0005172!4.22e-11!49;UBERON:0005173!4.22e-11!49;UBERON:0002417!4.22e-11!49;UBERON:0000916!4.22e-11!49;UBERON:0001007!5.14e-11!116;UBERON:0001555!5.14e-11!116;UBERON:0007026!5.14e-11!116;UBERON:0004119!5.65e-11!118;UBERON:0000925!5.65e-11!118;UBERON:0006595!5.65e-11!118;UBERON:0009854!1.12e-10!23;UBERON:0009856!1.12e-10!23;UBERON:0001242!3.31e-10!13;UBERON:0000060!3.31e-10!13;UBERON:0001262!3.31e-10!13;UBERON:0004786!3.31e-10!13;UBERON:0005177!3.35e-10!79;UBERON:0004921!4.24e-10!114;UBERON:0002365!2.87e-09!25;UBERON:0002330!2.87e-09!25;UBERON:0001264!2.66e-08!12;UBERON:0002113!4.86e-08!14;UBERON:0003918!4.86e-08!14;UBERON:0011143!4.86e-08!14;UBERON:0005095!4.86e-08!14;UBERON:0007687!4.86e-08!14;UBERON:0003350!1.46e-07!9;UBERON:0004808!1.46e-07!9;UBERON:0001277!1.46e-07!9;UBERON:0002100!2.84e-07!90;UBERON:0003104!7.83e-07!61;UBERON:0009142!7.83e-07!61;UBERON:0004923!8.34e-07!24
|tfbs_overrepresentation_for_novel_motifs=0.354643,1.04035,0.330161,0.394491,0.227651,0.40827,1.24018,0.448965,0.468136,0.133458,0.453212,0.484001,0.88117,0.507558,0.680035,0,0.696644,0.22065,0.829774,0.247067,0.296085,0.179861,0.50668,0.226287,0.895255,0.534339,1.30297,1.09532,0.268347,0.319094,0.414842,0.796599,0.624261,0.113369,0.242923,0.00999634,0.210533,0.480503,0.191662,0.167387,0.637027,1.07677,0.663794,0.244285,1.14242,0.383899,0.618203,0.443479,0.133514,0.745859,0.679429,0.560572,1.05886,0.937018,0.954342,0.514504,0.279148,0.471658,0.770972,0.512521,0.776777,0.569793,0.492158,0.668331,0.525334,0.708248,2.46867,1.43807,0.772155,1.29123,0.31262,0.151245,0.0512949,0.987652,0.116281,0.107966,0.364033,0.607043,0.759798,0.299972,0.152219,0.713779,0.568383,0.436063,0.873141,0.0800961,0.092683,0.319367,0.623015,1.60001,1.15927,0.878077,0.809272,0.232894,0.188213,0.17334,0.14449,0.812053,0.618454,0.278788,1.13987,3.11179,0.919715,1.62845,0.678976,0.419366,0.737915,0.439611,0.30446,0.297733,0.348012,0.921485,0.301014,0.458194,1.16629,0.222515,0.0259088,1.02946,0.697928,0.207304,0.993019,1.56109,0.536114,0.606154,1.22022,0.763454,0.503569,0.802564,1.08836,1.23559,0.90286,0.387557,1.05894,0.527782,1.18781,0.398576,0.951467,1.0797,1.13883,1.96797,1.5682,1.09456,0.547855,0.806961,0.672593,0.420221,0.621266,1.92834,0.956381,0.229209,0.32395,0.041769,0.938577,0.178329,0.526881,1.01974,0.561556,0.253271,0.352329,0.362302,1.1483,0.872292,0.763895,1.63697,0.669337,0.519673,0.209556,0.482466,0.0435162
|tfbs_overrepresentation_jaspar=MA0003.1;0.0854318,MA0004.1;0.394951,MA0006.1;0.238555,MA0007.1;1.75831,MA0009.1;0.82278,MA0014.1;0.961396,MA0017.1;1.3362,MA0019.1;0.642876,MA0024.1;0.779446,MA0025.1;1.05446,MA0027.1;2.46647,MA0028.1;0.24786,MA0029.1;0.757957,MA0030.1;0.764448,MA0031.1;0.729293,MA0038.1;0.534262,MA0040.1;0.835181,MA0041.1;1.5585,MA0042.1;0.837668,MA0043.1;0.918718,MA0046.1;9.5439,MA0048.1;0.281053,MA0050.1;0.431976,MA0051.1;0.542972,MA0052.1;0.84317,MA0055.1;0.221677,MA0056.1;0,MA0057.1;0.258928,MA0058.1;0.305206,MA0059.1;0.849123,MA0060.1;0.169058,MA0061.1;0.194456,MA0063.1;0,MA0066.1;0.523573,MA0067.1;1.16502,MA0068.1;0.563625,MA0069.1;0.843506,MA0070.1;0.833895,MA0071.1;0.431174,MA0072.1;0.825495,MA0073.1;2.88566,MA0074.1;0.488775,MA0076.1;0.279739,MA0077.1;0.804033,MA0078.1;0.575205,MA0081.1;0.338098,MA0083.1;0.917931,MA0084.1;1.49188,MA0087.1;0.87515,MA0088.1;0.18495,MA0089.1;0,MA0090.1;0.362551,MA0091.1;1.04993,MA0092.1;0.362847,MA0093.1;0.2553,MA0095.1;0,MA0098.1;0,MA0100.1;0.477594,MA0101.1;0.324888,MA0103.1;0.272167,MA0105.1;0.35523,MA0106.1;0.582805,MA0107.1;0.266586,MA0108.2;0.665343,MA0109.1;0,MA0111.1;0.375908,MA0113.1;0.555251,MA0114.1;4.90619,MA0115.1;2.12594,MA0116.1;0.238371,MA0117.1;0.88947,MA0119.1;0.325434,MA0122.1;0.909168,MA0124.1;1.11203,MA0125.1;1.03833,MA0130.1;0,MA0131.1;0.638414,MA0132.1;0,MA0133.1;0,MA0135.1;2.19411,MA0136.1;1.26662,MA0139.1;0.143341,MA0140.1;0.477483,MA0141.1;0.29014,MA0142.1;0.714976,MA0143.1;0.571221,MA0144.1;0.568165,MA0145.1;1.17902,MA0146.1;0.511859,MA0147.1;0.593505,MA0148.1;0.410398,MA0149.1;0.330018,MA0062.2;0.113962,MA0035.2;0.482026,MA0039.2;0.618828,MA0138.2;0.630612,MA0002.2;0.145685,MA0137.2;0.287486,MA0104.2;0.157347,MA0047.2;0.533516,MA0112.2;0.0543294,MA0065.2;2.19286,MA0150.1;0.380623,MA0151.1;0,MA0152.1;0.53362,MA0153.1;6.85555,MA0154.1;0.581988,MA0155.1;0.0631765,MA0156.1;0.278949,MA0157.1;0.683365,MA0158.1;0,MA0159.1;0.214506,MA0160.1;0.413266,MA0161.1;0,MA0162.1;0.0672805,MA0163.1;0.321031,MA0164.1;1.26737,MA0080.2;0.737531,MA0018.2;0.51781,MA0099.2;0.624421,MA0079.2;2.46822,MA0102.2;1.5442,MA0258.1;0.180934,MA0259.1;0.196451,MA0442.1;0
}}

Latest revision as of 15:51, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:43238372..43238387,+p@chr10:43238372..43238387
+
Mm9::chr12:113959903..113959921,-p@chr12:113959903..113959921
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Mm9::chr12:113959941..113959964,-p@chr12:113959941..113959964
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Mm9::chr12:113959971..113959985,-p@chr12:113959971..113959985
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Mm9::chr4:129782130..129782148,+p@chr4:129782130..129782148
+
Mm9::chr5:115418768..115418782,+p2@ENSMUST00000129609
Mm9::chr7:123003334..123003360,-p@chr7:123003334..123003360
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Mm9::chr7:123003361..123003378,-p@chr7:123003361..123003378
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Mm9::chr8:13200946..13200971,+p3@uc009kxe.1


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><br>

Cell Type
Ontology termp-valuen
intestinal epithelial cell1.46e-079
epithelial cell of alimentary canal1.46e-079

Uber Anatomy
Ontology termp-valuen
intestine9.11e-2131
gastrointestinal system5.34e-1847
liver1.74e-1122
epithelial sac1.74e-1122
digestive gland1.74e-1122
epithelium of foregut-midgut junction1.74e-1122
anatomical boundary1.74e-1122
hepatobiliary system1.74e-1122
foregut-midgut junction1.74e-1122
hepatic diverticulum1.74e-1122
liver primordium1.74e-1122
septum transversum1.74e-1122
liver bud1.74e-1122
mucosa1.87e-1115
abdomen element4.22e-1149
abdominal segment element4.22e-1149
abdominal segment of trunk4.22e-1149
abdomen4.22e-1149
digestive system5.14e-11116
digestive tract5.14e-11116
primitive gut5.14e-11116
endoderm-derived structure5.65e-11118
endoderm5.65e-11118
presumptive endoderm5.65e-11118
digestive tract diverticulum1.12e-1023
sac1.12e-1023
intestinal mucosa3.31e-1013
anatomical wall3.31e-1013
wall of intestine3.31e-1013
gastrointestinal system mucosa3.31e-1013
trunk region element3.35e-1079
subdivision of digestive tract4.24e-10114
exocrine gland2.87e-0925
exocrine system2.87e-0925
pancreas2.66e-0812
kidney4.86e-0814
kidney mesenchyme4.86e-0814
upper urinary tract4.86e-0814
kidney rudiment4.86e-0814
kidney field4.86e-0814
epithelium of mucosa1.46e-079
gastrointestinal system epithelium1.46e-079
intestinal epithelium1.46e-079
trunk2.84e-0790
mesenchyme7.83e-0761
entire embryonic mesenchyme7.83e-0761
organ component layer8.34e-0724


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)
MA0003.10.0854318
MA0004.10.394951
MA0006.10.238555
MA0007.11.75831
MA0009.10.82278
MA0014.10.961396
MA0017.11.3362
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
MA0041.11.5585
MA0042.10.837668
MA0043.10.918718
MA0046.19.5439
MA0048.10.281053
MA0050.10.431976
MA0051.10.542972
MA0052.10.84317
MA0055.10.221677
MA0056.10
MA0057.10.258928
MA0058.10.305206
MA0059.10.849123
MA0060.10.169058
MA0061.10.194456
MA0063.10
MA0066.10.523573
MA0067.11.16502
MA0068.10.563625
MA0069.10.843506
MA0070.10.833895
MA0071.10.431174
MA0072.10.825495
MA0073.12.88566
MA0074.10.488775
MA0076.10.279739
MA0077.10.804033
MA0078.10.575205
MA0081.10.338098
MA0083.10.917931
MA0084.11.49188
MA0087.10.87515
MA0088.10.18495
MA0089.10
MA0090.10.362551
MA0091.11.04993
MA0092.10.362847
MA0093.10.2553
MA0095.10
MA0098.10
MA0100.10.477594
MA0101.10.324888
MA0103.10.272167
MA0105.10.35523
MA0106.10.582805
MA0107.10.266586
MA0108.20.665343
MA0109.10
MA0111.10.375908
MA0113.10.555251
MA0114.14.90619
MA0115.12.12594
MA0116.10.238371
MA0117.10.88947
MA0119.10.325434
MA0122.10.909168
MA0124.11.11203
MA0125.11.03833
MA0130.10
MA0131.10.638414
MA0132.10
MA0133.10
MA0135.12.19411
MA0136.11.26662
MA0139.10.143341
MA0140.10.477483
MA0141.10.29014
MA0142.10.714976
MA0143.10.571221
MA0144.10.568165
MA0145.11.17902
MA0146.10.511859
MA0147.10.593505
MA0148.10.410398
MA0149.10.330018
MA0062.20.113962
MA0035.20.482026
MA0039.20.618828
MA0138.20.630612
MA0002.20.145685
MA0137.20.287486
MA0104.20.157347
MA0047.20.533516
MA0112.20.0543294
MA0065.22.19286
MA0150.10.380623
MA0151.10
MA0152.10.53362
MA0153.16.85555
MA0154.10.581988
MA0155.10.0631765
MA0156.10.278949
MA0157.10.683365
MA0158.10
MA0159.10.214506
MA0160.10.413266
MA0161.10
MA0162.10.0672805
MA0163.10.321031
MA0164.11.26737
MA0080.20.737531
MA0018.20.51781
MA0099.20.624421
MA0079.22.46822
MA0102.21.5442
MA0258.10.180934
MA0259.10.196451
MA0442.10
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