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MCL coexpression mm9:722: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002107!2.16e-18!22;UBERON:0007499!2.16e-18!22;UBERON:0006925!2.16e-18!22;UBERON:0009497!2.16e-18!22;UBERON:0000015!2.16e-18!22;UBERON:0002423!2.16e-18!22;UBERON:0006235!2.16e-18!22;UBERON:0008835!2.16e-18!22;UBERON:0003894!2.16e-18!22;UBERON:0004161!2.16e-18!22;UBERON:0008836!2.16e-18!22;UBERON:0009854!3.04e-17!23;UBERON:0009856!3.04e-17!23;UBERON:0000160!1.60e-15!31;UBERON:0002365!3.13e-15!25;UBERON:0002330!3.13e-15!25;UBERON:0004119!1.09e-11!118;UBERON:0000925!1.09e-11!118;UBERON:0006595!1.09e-11!118;UBERON:0005409!1.35e-11!47;UBERON:0001007!1.99e-11!116;UBERON:0001555!1.99e-11!116;UBERON:0007026!1.99e-11!116;UBERON:0004921!2.92e-10!114;UBERON:0005256!3.04e-09!45;UBERON:0000344!5.27e-08!15;UBERON:0005172!7.94e-08!49;UBERON:0005173!7.94e-08!49;UBERON:0002417!7.94e-08!49;UBERON:0000916!7.94e-08!49;UBERON:0003929!3.49e-07!55
|ontology_enrichment_uberon=UBERON:0002107!2.16e-18!22;UBERON:0007499!2.16e-18!22;UBERON:0006925!2.16e-18!22;UBERON:0009497!2.16e-18!22;UBERON:0000015!2.16e-18!22;UBERON:0002423!2.16e-18!22;UBERON:0006235!2.16e-18!22;UBERON:0008835!2.16e-18!22;UBERON:0003894!2.16e-18!22;UBERON:0004161!2.16e-18!22;UBERON:0008836!2.16e-18!22;UBERON:0009854!3.04e-17!23;UBERON:0009856!3.04e-17!23;UBERON:0000160!1.60e-15!31;UBERON:0002365!3.13e-15!25;UBERON:0002330!3.13e-15!25;UBERON:0004119!1.09e-11!118;UBERON:0000925!1.09e-11!118;UBERON:0006595!1.09e-11!118;UBERON:0005409!1.35e-11!47;UBERON:0001007!1.99e-11!116;UBERON:0001555!1.99e-11!116;UBERON:0007026!1.99e-11!116;UBERON:0004921!2.92e-10!114;UBERON:0005256!3.04e-09!45;UBERON:0000344!5.27e-08!15;UBERON:0005172!7.94e-08!49;UBERON:0005173!7.94e-08!49;UBERON:0002417!7.94e-08!49;UBERON:0000916!7.94e-08!49;UBERON:0003929!3.49e-07!55
|tfbs_overrepresentation_for_novel_motifs=0.321524,3.08026,0.297937,0.360062,0.200163,0.373426,1.16061,0.392928,0.816027,0.10445,0.417132,0.447169,0.124608,0.470194,0.214197,0,0.656089,1.073,0.736624,0.786777,1.34675,0.0365724,1.18379,0.198877,0.304728,0.496413,1.16975,0.392919,0.238759,0.967915,0.379806,5.71699,0.191698,0.646834,1.80612,0.00653988,0.184038,1.12869,4.57399,0.868806,0.196807,0.38461,1.28169,0.215898,0.119503,0.349801,0.578773,0.407653,0.104497,0.241306,0.639101,1.29662,0.0747297,0.894161,0.911367,0.47699,0.249055,0.435119,4.40762,1.19606,0.735292,0.531188,0.140453,0.628155,2.11983,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,1.41981,0.944464,1.61595,0.0893951,0.0942164,0.567793,0.718494,0.268962,0.129727,0.673009,0.529804,1.24891,0.830765,0.158895,2.09215,0.0791202,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,0.163126,0.149272,0.122617,0.770215,0.57902,1.30903,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,0.26996,0.421988,1.12221,0.195318,0.0187247,0.953611,0.657356,1.02287,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,1.35158,2.39382,0.385921,1.09487,1.92247,1.5231,1.0508,1.27006,0.765172,1.529,0.385031,1.42284,1.88287,0.882109,0.201635,0.0806411,0.559158,0.895708,0.153911,1.22617,0.976367,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.841258,0.629147,0.482049,0.18312,0.445669,0.555745
|tfbs_overrepresentation_for_novel_motifs=0.321524,3.08026,0.297937,0.360062,0.200163,0.373426,1.16061,0.392928,0.816027,0.10445,0.417132,0.447169,0.124608,0.470194,0.214197,0,0.656089,1.073,0.736624,0.786777,1.34675,0.0365724,1.18379,0.198877,0.304728,0.496413,1.16975,0.392919,0.238759,0.967915,0.379806,5.71699,0.191698,0.646834,1.80612,0.00653988,0.184038,1.12869,4.57399,0.868806,0.196807,0.38461,1.28169,0.215898,0.119503,0.349801,0.578773,0.407653,0.104497,0.241306,0.639101,1.29662,0.0747297,0.894161,0.911367,0.47699,0.249055,0.435119,4.40762,1.19606,0.735292,0.531188,0.140453,0.628155,2.11983,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,1.41981,0.944464,1.61595,0.0893951,0.0942164,0.567793,0.718494,0.268962,0.129727,0.673009,0.529804,1.24891,0.830765,0.158895,2.09215,0.0791202,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,0.163126,0.149272,0.122617,0.770215,0.57902,1.30903,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,0.26996,0.421988,1.12221,0.195318,0.0187247,0.953611,0.657356,1.02287,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,1.35158,2.39382,0.385921,1.09487,1.92247,1.5231,1.0508,1.27006,0.765172,1.529,0.385031,1.42284,1.88287,0.882109,0.201635,0.0806411,0.559158,0.895708,0.153911,1.22617,0.976367,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.841258,0.629147,0.482049,0.18312,0.445669,0.555745
|tfbs_overrepresentation_jaspar=MA0003.1;0.000759843,MA0004.1;0.360508,MA0006.1;0.210471,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;0.0290544,MA0017.1;0.233089,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;0.219287,MA0029.1;0.716673,MA0030.1;0.723093,MA0031.1;0.688336,MA0038.1;0.496338,MA0040.1;0.79313,MA0041.1;0.291712,MA0042.1;0.279998,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.066679,MA0050.1;1.02593,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.17385,MA0056.1;0,MA0057.1;0.059732,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;0.145297,MA0061.1;0.504772,MA0063.1;0,MA0066.1;0.485868,MA0067.1;1.12095,MA0068.1;0.0621035,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;0.395679,MA0072.1;0.783532,MA0073.1;0.000387955,MA0074.1;0.451832,MA0076.1;0.249619,MA0077.1;0.762273,MA0078.1;0.536502,MA0081.1;0.305576,MA0083.1;0.875209,MA0084.1;1.44691,MA0087.1;0.832758,MA0088.1;0.0379749,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;4.2879,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;1.44787,MA0103.1;1.26149,MA0105.1;0.0911942,MA0106.1;0.543967,MA0107.1;1.24141,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.90605,MA0113.1;0.516916,MA0114.1;0.167085,MA0115.1;0.878749,MA0116.1;0.210297,MA0117.1;0.846964,MA0119.1;0.293392,MA0122.1;0.866511,MA0124.1;1.06819,MA0125.1;0.994853,MA0130.1;0,MA0131.1;0.598671,MA0132.1;0,MA0133.1;0,MA0135.1;0.911905,MA0136.1;0.470672,MA0139.1;1.26076,MA0140.1;0.440804,MA0141.1;0.259554,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.506239,MA0145.1;0.163161,MA0146.1;0.00739145,MA0147.1;0.179496,MA0148.1;0.375491,MA0149.1;0.2978,MA0062.2;0.0948004,MA0035.2;0.44524,MA0039.2;0.026226,MA0138.2;0.590987,MA0002.2;0.781868,MA0137.2;0.713675,MA0104.2;0.134457,MA0047.2;0.495607,MA0112.2;1.4636,MA0065.2;0.0424448,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;0.232525,MA0155.1;0.732931,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.187774,MA0160.1;0.378276,MA0161.1;0,MA0162.1;0.475947,MA0163.1;1.69351,MA0164.1;0.471016,MA0080.2;0.669221,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.000197285,MA0102.2;1.49914,MA0258.1;0.921856,MA0259.1;0.50935,MA0442.1;0
}}
}}

Revision as of 12:12, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:7986102..7986126,-p@chr12:7986102..7986126
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Mm9::chr12:7986177..7986184,-p@chr12:7986177..7986184
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Mm9::chr8:73239652..73239658,+p@chr8:73239652..73239658
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Mm9::chr9:46038017..46038058,-p@chr9:46038017..46038058
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Mm9::chr9:46038091..46038109,-p@chr9:46038091..46038109
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Mm9::chr9:46038244..46038293,-p@chr9:46038244..46038293
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Mm9::chr9:46038309..46038345,-p@chr9:46038309..46038345
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Mm9::chr9:46038359..46038373,-p@chr9:46038359..46038373
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Mm9::chr9:46038383..46038398,-p@chr9:46038383..46038398
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Mm9::chr9:46038423..46038432,-p@chr9:46038423..46038432
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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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
liver2.16e-1822
epithelial sac2.16e-1822
digestive gland2.16e-1822
epithelium of foregut-midgut junction2.16e-1822
anatomical boundary2.16e-1822
hepatobiliary system2.16e-1822
foregut-midgut junction2.16e-1822
hepatic diverticulum2.16e-1822
liver primordium2.16e-1822
septum transversum2.16e-1822
liver bud2.16e-1822
digestive tract diverticulum3.04e-1723
sac3.04e-1723
intestine1.60e-1531
exocrine gland3.13e-1525
exocrine system3.13e-1525
endoderm-derived structure1.09e-11118
endoderm1.09e-11118
presumptive endoderm1.09e-11118
gastrointestinal system1.35e-1147
digestive system1.99e-11116
digestive tract1.99e-11116
primitive gut1.99e-11116
subdivision of digestive tract2.92e-10114
trunk mesenchyme3.04e-0945
mucosa5.27e-0815
abdomen element7.94e-0849
abdominal segment element7.94e-0849
abdominal segment of trunk7.94e-0849
abdomen7.94e-0849
gut epithelium3.49e-0755


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)
MA0003.10.000759843
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.0290544
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.291712
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.066679
MA0050.11.02593
MA0051.10.504875
MA0052.10.801048
MA0055.10.17385
MA0056.10
MA0057.10.059732
MA0058.10.273976
MA0059.10.28489
MA0060.10.145297
MA0061.10.504772
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.0621035
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.000387955
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.0379749
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.14.2879
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.11.44787
MA0103.11.26149
MA0105.10.0911942
MA0106.10.543967
MA0107.11.24141
MA0108.20.625209
MA0109.10
MA0111.10.90605
MA0113.10.516916
MA0114.10.167085
MA0115.10.878749
MA0116.10.210297
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.11.26076
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.506239
MA0145.10.163161
MA0146.10.00739145
MA0147.10.179496
MA0148.10.375491
MA0149.10.2978
MA0062.20.0948004
MA0035.20.44524
MA0039.20.026226
MA0138.20.590987
MA0002.20.781868
MA0137.20.713675
MA0104.20.134457
MA0047.20.495607
MA0112.21.4636
MA0065.20.0424448
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.232525
MA0155.10.732931
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.10.378276
MA0161.10
MA0162.10.475947
MA0163.11.69351
MA0164.10.471016
MA0080.20.669221
MA0018.20.480226
MA0099.20.584892
MA0079.20.000197285
MA0102.21.49914
MA0258.10.921856
MA0259.10.50935
MA0442.10
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