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MCL coexpression mm9:688: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004923!3.15e-11!24;UBERON:0009854!2.52e-09!23;UBERON:0009856!2.52e-09!23;UBERON:0005409!4.07e-09!47;UBERON:0002107!4.50e-09!22;UBERON:0007499!4.50e-09!22;UBERON:0006925!4.50e-09!22;UBERON:0009497!4.50e-09!22;UBERON:0000015!4.50e-09!22;UBERON:0002423!4.50e-09!22;UBERON:0006235!4.50e-09!22;UBERON:0008835!4.50e-09!22;UBERON:0003894!4.50e-09!22;UBERON:0004161!4.50e-09!22;UBERON:0008836!4.50e-09!22;UBERON:0000160!9.46e-09!31;UBERON:0000344!1.05e-08!15;UBERON:0002365!1.48e-08!25;UBERON:0002330!1.48e-08!25;UBERON:0005172!1.81e-08!49;UBERON:0005173!1.81e-08!49;UBERON:0002417!1.81e-08!49;UBERON:0000916!1.81e-08!49;UBERON:0004119!5.26e-08!118;UBERON:0000925!5.26e-08!118;UBERON:0006595!5.26e-08!118;UBERON:0001007!7.14e-08!116;UBERON:0001555!7.14e-08!116;UBERON:0007026!7.14e-08!116;UBERON:0001242!7.19e-08!13;UBERON:0000060!7.19e-08!13;UBERON:0001262!7.19e-08!13;UBERON:0004786!7.19e-08!13;UBERON:0004921!2.94e-07!114;UBERON:0003914!5.97e-07!47
|tfbs_overrepresentation_for_novel_motifs=0.860199,0.588611,0.297937,0.360062,1.09907,0.975411,0.458558,0.124431,1.32388,2.00078,0.417132,0.447169,0.393382,0.470194,0.214197,0,1.57859,1.073,0.364803,0.0560853,0.26524,0.336916,0.469335,0.198877,0.304728,0.496413,0.107695,0.392919,0.238759,0.271461,1.75512,0.754912,0.191698,1.07782,5.17532,0.6066,1.63646,1.12869,0.166348,0.143746,0.196807,0.38461,0.890234,0.617704,0.962788,0.923221,0.578773,1.05036,0.0244624,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,2.08455,0.249055,0.435119,0.332535,0.47505,0.735292,0.531188,0.433822,0.628155,0.487593,1.60248,1.04613,1.3932,0.730718,1.24673,1.40499,1.3071,0.996746,0.944464,1.09617,0.300089,0.0942164,0.567793,0.718494,0.268962,1.31277,0.673009,0.529804,0.380754,0.830765,1.14518,0.0697823,0.271714,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,0.950022,1.43327,0.122617,0.770215,1.41701,0.0659594,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.736223,0.315128,0.878738,0.26996,0.421988,1.12221,0.195318,0.993542,0.363536,0.657356,0.181004,0.949798,0.607824,0.498153,1.39149,1.17594,1.71587,0.466292,0.760818,1.04463,0.207624,0.86025,0.931072,1.01535,0.48999,1.14365,0.944028,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,1.80495,1.529,1.77315,0.581788,1.88287,0.882109,0.201635,0.97987,3.35582,0.895708,0.911723,0.489108,0.976367,0.523103,0.224422,0.319291,0.876739,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.53929,0.445669,2.70658
|tfbs_overrepresentation_jaspar=MA0003.1;1.53513,MA0004.1;0.360508,MA0006.1;0.604851,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;3.66723,MA0017.1;0.233089,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;0.625707,MA0029.1;0.716673,MA0030.1;1.71791,MA0031.1;1.64576,MA0038.1;0.496338,MA0040.1;1.86262,MA0041.1;0.291712,MA0042.1;0.279998,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.873214,MA0050.1;0.396459,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.576005,MA0056.1;0,MA0057.1;1.2407,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;4.29114,MA0061.1;0.16896,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;1.80978,MA0072.1;0.783532,MA0073.1;0.460904,MA0074.1;0.451832,MA0076.1;0.249619,MA0077.1;0.762273,MA0078.1;0.536502,MA0081.1;0.305576,MA0083.1;6.35345,MA0084.1;3.18961,MA0087.1;0.832758,MA0088.1;0.34573,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;0.329444,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;0.292867,MA0103.1;0.242398,MA0105.1;1.0562,MA0106.1;0.543967,MA0107.1;0.237082,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.342068,MA0113.1;0.516916,MA0114.1;0.500166,MA0115.1;0.878749,MA0116.1;0.604438,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;2.47978,MA0140.1;0.440804,MA0141.1;0.719522,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.169559,MA0145.1;1.95542,MA0146.1;0.923066,MA0147.1;1.01679,MA0148.1;0.375491,MA0149.1;0.2978,MA0062.2;0.314778,MA0035.2;1.1319,MA0039.2;4.87692,MA0138.2;0.590987,MA0002.2;0.123715,MA0137.2;0.257017,MA0104.2;0.418613,MA0047.2;0.495607,MA0112.2;0.663994,MA0065.2;0.163769,MA0150.1;0.346631,MA0151.1;0,MA0152.1;1.24029,MA0153.1;0.92832,MA0154.1;0.232525,MA0155.1;1.58565,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.187774,MA0160.1;0.986076,MA0161.1;0,MA0162.1;0.134999,MA0163.1;1.31067,MA0164.1;0.471016,MA0080.2;0.237846,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;2.58709,MA0102.2;1.49914,MA0258.1;0.156336,MA0259.1;0.981631,MA0442.1;0
}}

Latest revision as of 15:43, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:39862053..39862066,-p1@Slc16a10
Mm9::chr19:12870006..12870057,-p@chr19:12870006..12870057
-
Mm9::chr19:29141761..29141787,+p2@Gm9895
Mm9::chr19:29141797..29141817,+p1@Gm9895
Mm9::chr19:29141831..29141843,+p1@uc008hcz.1
Mm9::chr4:43053120..43053144,-p4@B230312A22Rik
Mm9::chr6:87761765..87761796,-p1@Rab43
Mm9::chr7:128125774..128125819,-p1@Cdr2
Mm9::chr8:126506921..126506933,+p@chr8:126506921..126506933
+
Mm9::chr9:107996988..107997027,+p@chr9:107996988..107997027
+


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
organ component layer3.15e-1124
digestive tract diverticulum2.52e-0923
sac2.52e-0923
gastrointestinal system4.07e-0947
liver4.50e-0922
epithelial sac4.50e-0922
digestive gland4.50e-0922
epithelium of foregut-midgut junction4.50e-0922
anatomical boundary4.50e-0922
hepatobiliary system4.50e-0922
foregut-midgut junction4.50e-0922
hepatic diverticulum4.50e-0922
liver primordium4.50e-0922
septum transversum4.50e-0922
liver bud4.50e-0922
intestine9.46e-0931
mucosa1.05e-0815
exocrine gland1.48e-0825
exocrine system1.48e-0825
abdomen element1.81e-0849
abdominal segment element1.81e-0849
abdominal segment of trunk1.81e-0849
abdomen1.81e-0849
endoderm-derived structure5.26e-08118
endoderm5.26e-08118
presumptive endoderm5.26e-08118
digestive system7.14e-08116
digestive tract7.14e-08116
primitive gut7.14e-08116
intestinal mucosa7.19e-0813
anatomical wall7.19e-0813
wall of intestine7.19e-0813
gastrointestinal system mucosa7.19e-0813
subdivision of digestive tract2.94e-07114
epithelial tube5.97e-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)
MA0003.11.53513
MA0004.10.360508
MA0006.10.604851
MA0007.10.346734
MA0009.10.780842
MA0014.13.66723
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.625707
MA0029.10.716673
MA0030.11.71791
MA0031.11.64576
MA0038.10.496338
MA0040.11.86262
MA0041.10.291712
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.873214
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.576005
MA0056.10
MA0057.11.2407
MA0058.10.273976
MA0059.10.28489
MA0060.14.29114
MA0061.10.16896
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.0621035
MA0069.10.801381
MA0070.10.791856
MA0071.11.80978
MA0072.10.783532
MA0073.10.460904
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.16.35345
MA0084.13.18961
MA0087.10.832758
MA0088.10.34573
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.242398
MA0105.11.0562
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.500166
MA0115.10.878749
MA0116.10.604438
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
MA0139.12.47978
MA0140.10.440804
MA0141.10.719522
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.11.95542
MA0146.10.923066
MA0147.11.01679
MA0148.10.375491
MA0149.10.2978
MA0062.20.314778
MA0035.21.1319
MA0039.24.87692
MA0138.20.590987
MA0002.20.123715
MA0137.20.257017
MA0104.20.418613
MA0047.20.495607
MA0112.20.663994
MA0065.20.163769
MA0150.10.346631
MA0151.10
MA0152.11.24029
MA0153.10.92832
MA0154.10.232525
MA0155.11.58565
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.10.986076
MA0161.10
MA0162.10.134999
MA0163.11.31067
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.22.58709
MA0102.21.49914
MA0258.10.156336
MA0259.10.981631
MA0442.10
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