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MCL coexpression mm9:1525: Difference between revisions

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{{MCL_coexpression_mm9
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glucose homeostasis;0.0173478783104917;15377!GO:0009267;cellular response to starvation;0.0173478783104917;15377!GO:0031669;cellular response to nutrient levels;0.0173478783104917;15377!GO:0042594;response to starvation;0.0173478783104917;15377!GO:0031668;cellular response to extracellular stimulus;0.0173478783104917;15377!GO:0005667;transcription factor complex;0.0173478783104917;72754,15377!GO:0033558;protein deacetylase activity;0.0173478783104917;72754!GO:0004407;histone deacetylase activity;0.0173478783104917;72754!GO:0031667;response to nutrient levels;0.0173478783104917;15377!GO:0019213;deacetylase activity;0.0173478783104917;72754!GO:0044451;nucleoplasm part;0.0173478783104917;72754,15377!GO:0009991;response to extracellular stimulus;0.0173478783104917;15377!GO:0005654;nucleoplasm;0.0173478783104917;72754,15377!GO:0033554;cellular response to stress;0.0173478783104917;15377!GO:0051716;cellular response to stimulus;0.0189225423342078;15377!GO:0000118;histone deacetylase complex;0.0189225423342078;72754!GO:0031981;nuclear lumen;0.0189225423342078;72754,15377!GO:0042593;glucose homeostasis;0.0194297496760142;15377!GO:0033500;carbohydrate homeostasis;0.0194297496760142;15377!GO:0031974;membrane-enclosed lumen;0.0194297496760142;72754,15377!GO:0043233;organelle lumen;0.0194297496760142;72754,15377!GO:0016811;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides;0.0310715940293953;72754!GO:0044428;nuclear part;0.0310715940293953;72754,15377!|ontology_enrichment_celltype=|ontology_enrichment_disease=|ontology_enrichment_uberon=UBERON:0009854!1.62e-17!23;UBERON:0009856!1.62e-17!23;UBERON:0002107!1.08e-16!22;UBERON:0007499!1.08e-16!22;UBERON:0006925!1.08e-16!22;UBERON:0009497!1.08e-16!22;UBERON:0000015!1.08e-16!22;UBERON:0002423!1.08e-16!22;UBERON:0006235!1.08e-16!22;UBERON:0008835!1.08e-16!22;UBERON:0003894!1.08e-16!22;UBERON:0004161!1.08e-16!22;UBERON:0008836!1.08e-16!22;UBERON:0002365!1.20e-13!25;UBERON:0002330!1.20e-13!25;UBERON:0005177!6.75e-12!79;UBERON:0005172!3.25e-11!49;UBERON:0005173!3.25e-11!49;UBERON:0002417!3.25e-11!49;UBERON:0000916!3.25e-11!49;UBERON:0005409!9.44e-11!47;UBERON:0004119!2.55e-10!118;UBERON:0000925!2.55e-10!118;UBERON:0006595!2.55e-10!118;UBERON:0001007!2.57e-10!116;UBERON:0001555!2.57e-10!116;UBERON:0007026!2.57e-10!116;UBERON:0004921!1.73e-09!114;UBERON:0001264!3.09e-09!12;UBERON:0002100!1.24e-08!90;UBERON:0000160!1.63e-08!31;UBERON:0000949!1.08e-07!72;UBERON:0000466!9.33e-07!79|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,1.46803,0.406364,0.618805,0.715644,0.300268,0.310789,1.22306,0.668936,0.702872,0.300533,0.728641,0.424775,0,0.930881,0.397593,0.283802,0.185796,0.489529,0.145201,0.727684,1.04384,1.32977,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,2.70973,0.704734,0.425309,0.791367,0.384813,0.699032,0.360612,0.328675,0.401916,0.631725,0.134724,0.426986,0.4934,0.591277,1.97509,1.58288,0.746467,0.459555,0.912738,0.786094,1.17664,1.18062,1.19842,0.73621,0.469329,0.689304,0.26467,0.734051,1.01481,0.796017,0.865544,0.901018,0.747985,0.943088,1.33705,1.68977,1.00999,1.54147,0.509047,0.30684,0.152094,1.23259,1.31774,0.686172,0.70455,0.835925,0.997094,0.494135,0.830212,0.948899,0.794502,0.293164,1.1148,0.970369,0.0882907,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,1.06179,0.356133,0.3366,0.297538,1.05152,6.21092,0.20438,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.380707,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.44142,0.566955,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,1.98178,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,1.11626,0.555203,1.39093,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.425122|tfbs_overrepresentation_jaspar=MA0003.1;0.211284,MA0004.1;0.603793,MA0006.1;1.89254,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;0.418772,MA0017.1;0.449113,MA0019.1;0.874061,MA0024.1;1.01759,MA0025.1;1.30092,MA0027.1;2.72141,MA0028.1;1.10192,MA0029.1;0.995171,MA0030.1;1.00195,MA0031.1;0.965177,MA0038.1;0.757669,MA0040.1;1.07552,MA0041.1;0.522007,MA0042.1;0.507715,MA0043.1;1.1618,MA0046.1;1.09955,MA0048.1;0.593503,MA0050.1;0.645342,MA0051.1;1.80893,MA0052.1;1.08379,MA0055.1;0.28842,MA0056.1;0,MA0057.1;0.192781,MA0058.1;0.50032,MA0059.1;0.513699,MA0060.1;0.330907,MA0061.1;0.955135,MA0063.1;0,MA0066.1;0.746072,MA0067.1;1.41352,MA0068.1;0.197245,MA0069.1;1.08414,MA0070.1;1.07418,MA0071.1;0.644448,MA0072.1;1.06547,MA0073.1;0.00450236,MA0074.1;0.708108,MA0076.1;0.470037,MA0077.1;1.04318,MA0078.1;0.801834,MA0081.1;0.53877,MA0083.1;1.16099,MA0084.1;1.74401,MA0087.1;1.11687,MA0088.1;0.453686,MA0089.1;0,MA0090.1;0.566938,MA0091.1;0.617887,MA0092.1;0.567278,MA0093.1;0.440484,MA0095.1;0,MA0098.1;0,MA0100.1;0.695835,MA0101.1;0.523409,MA0103.1;0.460936,MA0105.1;1.28296,MA0106.1;0.809991,MA0107.1;0.454197,MA0108.2;0.897859,MA0109.1;0,MA0111.1;0.582193,MA0113.1;0.780358,MA0114.1;0.361633,MA0115.1;1.16466,MA0116.1;1.89177,MA0117.1;1.13165,MA0119.1;0.524046,MA0122.1;1.15196,MA0124.1;1.35963,MA0125.1;1.28445,MA0130.1;0,MA0131.1;0.869325,MA0132.1;0,MA0133.1;0,MA0135.1;1.19898,MA0136.1;0.729175,MA0139.1;0.295945,MA0140.1;0.695713,MA0141.1;0.482463,MA0142.1;0.950155,MA0143.1;0.797553,MA0144.1;2.56724,MA0145.1;2.12682,MA0146.1;0.21827,MA0147.1;0.378658,MA0148.1;0.621195,MA0149.1;0.529387,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;0.285933,MA0138.2;0.861035,MA0002.2;1.47075,MA0137.2;1.20517,MA0104.2;0.315156,MA0047.2;1.78778,MA0112.2;0.47695,MA0065.2;0.158101,MA0150.1;0.587557,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;0.587595,MA0155.1;0.515751,MA0156.1;0.469089,MA0157.1;0.91689,MA0158.1;0,MA0159.1;0.389847,MA0160.1;0.624415,MA0161.1;0,MA0162.1;0.0699535,MA0163.1;0.0644585,MA0164.1;0.729558,MA0080.2;1.15331,MA0018.2;0.739807,MA0099.2;0.854449,MA0079.2;0.0381166,MA0102.2;1.79669,MA0258.1;0.346619,MA0259.1;0.366802,MA0442.1;0}}
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|gostat_on_MCL_coexpression=GO:0001678;cell glucose homeostasis;0.0173478783104917;15377!GO:0009267;cellular response to starvation;0.0173478783104917;15377!GO:0031669;cellular response to nutrient levels;0.0173478783104917;15377!GO:0042594;response to starvation;0.0173478783104917;15377!GO:0031668;cellular response to extracellular stimulus;0.0173478783104917;15377!GO:0005667;transcription factor complex;0.0173478783104917;72754,15377!GO:0033558;protein deacetylase activity;0.0173478783104917;72754!GO:0004407;histone deacetylase activity;0.0173478783104917;72754!GO:0031667;response to nutrient levels;0.0173478783104917;15377!GO:0019213;deacetylase activity;0.0173478783104917;72754!GO:0044451;nucleoplasm part;0.0173478783104917;72754,15377!GO:0009991;response to extracellular stimulus;0.0173478783104917;15377!GO:0005654;nucleoplasm;0.0173478783104917;72754,15377!GO:0033554;cellular response to stress;0.0173478783104917;15377!GO:0051716;cellular response to stimulus;0.0189225423342078;15377!GO:0000118;histone deacetylase complex;0.0189225423342078;72754!GO:0031981;nuclear lumen;0.0189225423342078;72754,15377!GO:0042593;glucose homeostasis;0.0194297496760142;15377!GO:0033500;carbohydrate homeostasis;0.0194297496760142;15377!GO:0031974;membrane-enclosed lumen;0.0194297496760142;72754,15377!GO:0043233;organelle lumen;0.0194297496760142;72754,15377!GO:0016811;hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides;0.0310715940293953;72754!GO:0044428;nuclear part;0.0310715940293953;72754,15377!
}}

Latest revision as of 17:04, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:68613983..68614029,+p2@Rhobtb1
Mm9::chr10:68614034..68614054,+p8@Rhobtb1
Mm9::chr10:68614061..68614075,+p11@Rhobtb1
Mm9::chr4:140172977..140172999,-p5@Arhgef10l
Mm9::chr7:19608891..19608895,-p1@Foxa3


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:0001678cell glucose homeostasis0.0173478783104917
GO:0009267cellular response to starvation0.0173478783104917
GO:0031669cellular response to nutrient levels0.0173478783104917
GO:0042594response to starvation0.0173478783104917
GO:0031668cellular response to extracellular stimulus0.0173478783104917
GO:0005667transcription factor complex0.0173478783104917
GO:0033558protein deacetylase activity0.0173478783104917
GO:0004407histone deacetylase activity0.0173478783104917
GO:0031667response to nutrient levels0.0173478783104917
GO:0019213deacetylase activity0.0173478783104917
GO:0044451nucleoplasm part0.0173478783104917
GO:0009991response to extracellular stimulus0.0173478783104917
GO:0005654nucleoplasm0.0173478783104917
GO:0033554cellular response to stress0.0173478783104917
GO:0051716cellular response to stimulus0.0189225423342078
GO:0000118histone deacetylase complex0.0189225423342078
GO:0031981nuclear lumen0.0189225423342078
GO:0042593glucose homeostasis0.0194297496760142
GO:0033500carbohydrate homeostasis0.0194297496760142
GO:0031974membrane-enclosed lumen0.0194297496760142
GO:0043233organelle lumen0.0194297496760142
GO:0016811hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides0.0310715940293953
GO:0044428nuclear part0.0310715940293953



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
digestive tract diverticulum1.62e-1723
sac1.62e-1723
liver1.08e-1622
epithelial sac1.08e-1622
digestive gland1.08e-1622
epithelium of foregut-midgut junction1.08e-1622
anatomical boundary1.08e-1622
hepatobiliary system1.08e-1622
foregut-midgut junction1.08e-1622
hepatic diverticulum1.08e-1622
liver primordium1.08e-1622
septum transversum1.08e-1622
liver bud1.08e-1622
exocrine gland1.20e-1325
exocrine system1.20e-1325
trunk region element6.75e-1279
abdomen element3.25e-1149
abdominal segment element3.25e-1149
abdominal segment of trunk3.25e-1149
abdomen3.25e-1149
gastrointestinal system9.44e-1147
endoderm-derived structure2.55e-10118
endoderm2.55e-10118
presumptive endoderm2.55e-10118
digestive system2.57e-10116
digestive tract2.57e-10116
primitive gut2.57e-10116
subdivision of digestive tract1.73e-09114
pancreas3.09e-0912
trunk1.24e-0890
intestine1.63e-0831
endocrine system1.08e-0772
immaterial anatomical entity9.33e-0779


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)
MA0003.10.211284
MA0004.10.603793
MA0006.11.89254
MA0007.10.587678
MA0009.11.06266
MA0014.10.418772
MA0017.10.449113
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.11.10192
MA0029.10.995171
MA0030.11.00195
MA0031.10.965177
MA0038.10.757669
MA0040.11.07552
MA0041.10.522007
MA0042.10.507715
MA0043.11.1618
MA0046.11.09955
MA0048.10.593503
MA0050.10.645342
MA0051.11.80893
MA0052.11.08379
MA0055.10.28842
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.330907
MA0061.10.955135
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.00450236
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.453686
MA0089.10
MA0090.10.566938
MA0091.10.617887
MA0092.10.567278
MA0093.10.440484
MA0095.10
MA0098.10
MA0100.10.695835
MA0101.10.523409
MA0103.10.460936
MA0105.11.28296
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.11.89177
MA0117.11.13165
MA0119.10.524046
MA0122.11.15196
MA0124.11.35963
MA0125.11.28445
MA0130.10
MA0131.10.869325
MA0132.10
MA0133.10
MA0135.11.19898
MA0136.10.729175
MA0139.10.295945
MA0140.10.695713
MA0141.10.482463
MA0142.10.950155
MA0143.10.797553
MA0144.12.56724
MA0145.12.12682
MA0146.10.21827
MA0147.10.378658
MA0148.10.621195
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.285933
MA0138.20.861035
MA0002.21.47075
MA0137.21.20517
MA0104.20.315156
MA0047.21.78778
MA0112.20.47695
MA0065.20.158101
MA0150.10.587557
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.587595
MA0155.10.515751
MA0156.10.469089
MA0157.10.91689
MA0158.10
MA0159.10.389847
MA0160.10.624415
MA0161.10
MA0162.10.0699535
MA0163.10.0644585
MA0164.10.729558
MA0080.21.15331
MA0018.20.739807
MA0099.20.854449
MA0079.20.0381166
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
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