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MCL coexpression mm9:1633: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002193!5.47e-21!48;UBERON:0002405!5.47e-21!48;UBERON:0002390!1.67e-19!45;UBERON:0003061!1.67e-19!45;UBERON:0003081!2.56e-12!87;UBERON:0004177!1.87e-11!29;UBERON:0005057!1.87e-11!29;UBERON:0000926!3.82e-10!120;UBERON:0004120!3.82e-10!120;UBERON:0006603!3.82e-10!120;UBERON:0001041!5.93e-10!80;UBERON:0000077!9.19e-10!35;UBERON:0003408!6.07e-09!24;UBERON:0002371!6.89e-09!16;UBERON:0002370!1.39e-08!23;UBERON:0000974!1.39e-08!23;UBERON:0004807!1.39e-08!23;UBERON:0005058!1.39e-08!23;UBERON:0003351!1.39e-08!23;UBERON:0009113!1.39e-08!23;UBERON:0003295!1.39e-08!23;UBERON:0009722!1.39e-08!23;UBERON:0005562!1.39e-08!23;UBERON:0007690!1.39e-08!23;UBERON:0004119!1.88e-08!118;UBERON:0000925!1.88e-08!118;UBERON:0006595!1.88e-08!118;UBERON:0001007!2.31e-08!116;UBERON:0001555!2.31e-08!116;UBERON:0007026!2.31e-08!116;UBERON:0001474!4.16e-08!22;UBERON:0004765!4.16e-08!22;UBERON:0001434!4.16e-08!22;UBERON:0006562!4.97e-08!24;UBERON:0001557!4.97e-08!24;UBERON:0001042!4.97e-08!24;UBERON:0008814!4.97e-08!24;UBERON:0009145!4.97e-08!24;UBERON:0004921!8.32e-08!114;UBERON:0002530!2.10e-07!65
|ontology_enrichment_uberon=UBERON:0002193!5.47e-21!48;UBERON:0002405!5.47e-21!48;UBERON:0002390!1.67e-19!45;UBERON:0003061!1.67e-19!45;UBERON:0003081!2.56e-12!87;UBERON:0004177!1.87e-11!29;UBERON:0005057!1.87e-11!29;UBERON:0000926!3.82e-10!120;UBERON:0004120!3.82e-10!120;UBERON:0006603!3.82e-10!120;UBERON:0001041!5.93e-10!80;UBERON:0000077!9.19e-10!35;UBERON:0003408!6.07e-09!24;UBERON:0002371!6.89e-09!16;UBERON:0002370!1.39e-08!23;UBERON:0000974!1.39e-08!23;UBERON:0004807!1.39e-08!23;UBERON:0005058!1.39e-08!23;UBERON:0003351!1.39e-08!23;UBERON:0009113!1.39e-08!23;UBERON:0003295!1.39e-08!23;UBERON:0009722!1.39e-08!23;UBERON:0005562!1.39e-08!23;UBERON:0007690!1.39e-08!23;UBERON:0004119!1.88e-08!118;UBERON:0000925!1.88e-08!118;UBERON:0006595!1.88e-08!118;UBERON:0001007!2.31e-08!116;UBERON:0001555!2.31e-08!116;UBERON:0007026!2.31e-08!116;UBERON:0001474!4.16e-08!22;UBERON:0004765!4.16e-08!22;UBERON:0001434!4.16e-08!22;UBERON:0006562!4.97e-08!24;UBERON:0001557!4.97e-08!24;UBERON:0001042!4.97e-08!24;UBERON:0008814!4.97e-08!24;UBERON:0009145!4.97e-08!24;UBERON:0004921!8.32e-08!114;UBERON:0002530!2.10e-07!65
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,0.603273,1.04755,0.618805,0.715644,0.300268,0.310789,0.115752,0.668936,0.702872,1.47559,0.728641,0.424775,0,0.930881,1.02841,0.283802,0.185796,2.12626,0.145201,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.253145,0.425309,0.0566307,0.384813,0.699032,0.360612,0.328675,1.03785,0.631725,0.419293,0.426986,0.0637209,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,1.17664,1.18062,1.19842,0.73621,1.18377,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,2.30638,1.54147,0.509047,0.827208,0.152094,1.23259,0.257421,0.245132,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,1.86544,0.796301,1.1148,0.0793594,0.297068,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,5.05241,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.991416,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,1.39156,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,1.11626,1.36673,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.0513167
|tfbs_overrepresentation_for_novel_motifs=0.557864,0.293744,0.529553,0.603273,1.04755,0.618805,0.715644,0.300268,0.310789,0.115752,0.668936,0.702872,1.47559,0.728641,0.424775,0,0.930881,1.02841,0.283802,0.185796,2.12626,0.145201,0.727684,0.404661,0.537749,0.757752,0.274609,0.641282,0.456327,0.227599,0.626183,1.03545,0.395107,0.253145,0.425309,0.0566307,0.384813,0.699032,0.360612,0.328675,1.03785,0.631725,0.419293,0.426986,0.0637209,0.591277,0.847828,0.658142,0.370501,0.459555,0.912738,0.786094,1.17664,1.18062,1.19842,0.73621,1.18377,0.689304,0.26467,0.734051,1.01481,0.796017,0.323911,0.901018,0.747985,0.943088,1.33705,1.68977,2.30638,1.54147,0.509047,0.827208,0.152094,1.23259,0.257421,0.245132,0.253065,0.835925,0.997094,0.494135,0.308173,0.948899,1.86544,0.796301,1.1148,0.0793594,0.297068,0.227755,0.852952,1.85284,1.40768,1.11989,1.04863,0.412897,0.356133,0.3366,0.297538,1.05152,0.848095,5.05241,0.384901,1.03517,1.16282,0.913356,0.91226,0.631253,0.97421,0.653843,0.499439,0.491483,0.550229,1.16464,0.495367,0.674448,1.41481,0.399936,0.0998646,0.607321,0.932233,0.991416,1.23809,0.879184,0.759676,0.834976,1.46955,1.00091,0.724289,1.04166,1.33551,0.416189,1.14546,0.595426,1.3055,0.750642,1.43666,0.143464,1.39156,0.633235,1.3869,2.2222,1.82084,1.34183,0.772375,1.04623,0.905521,0.632211,0.851091,2.18247,0.569503,0.408309,0.230371,0.133815,1.18223,0.343194,0.749664,1.26545,0.787153,1.11626,1.36673,0.566652,1.39653,1.11392,1.00137,0.547782,0.90208,0.741834,0.383572,0.701187,0.0513167
|tfbs_overrepresentation_jaspar=MA0003.1;0.0185483,MA0004.1;0.603793,MA0006.1;0.419915,MA0007.1;0.587678,MA0009.1;1.06266,MA0014.1;0.0502051,MA0017.1;1.14026,MA0019.1;0.874061,MA0024.1;1.01759,MA0025.1;1.30092,MA0027.1;2.72141,MA0028.1;0.43138,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;0.767098,MA0052.1;1.08379,MA0055.1;0.0851423,MA0056.1;0,MA0057.1;0.192781,MA0058.1;0.50032,MA0059.1;0.513699,MA0060.1;0.881183,MA0061.1;0.364227,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;0.000589538,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;0.148348,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;0.248108,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;0.419688,MA0117.1;1.13165,MA0119.1;0.524046,MA0122.1;1.15196,MA0124.1;3.01387,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;0.365053,MA0145.1;0.157686,MA0146.1;0.0604336,MA0147.1;0.378658,MA0148.1;1.50563,MA0149.1;0.529387,MA0062.2;0.254018,MA0035.2;0.700704,MA0039.2;0.0102623,MA0138.2;0.861035,MA0002.2;0.299191,MA0137.2;0.479301,MA0104.2;0.315156,MA0047.2;0.75686,MA0112.2;0.157681,MA0065.2;0.158101,MA0150.1;2.44752,MA0151.1;0,MA0152.1;0.756973,MA0153.1;1.21594,MA0154.1;0.203217,MA0155.1;0.173445,MA0156.1;2.05819,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;2.95501e-05,MA0102.2;1.79669,MA0258.1;0.346619,MA0259.1;0.366802,MA0442.1;0
}}
}}

Revision as of 13:38, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:99506836..99506864,+p2@Gpr65
Mm9::chr12:99506866..99506887,+p1@Gpr65
Mm9::chr12:99506888..99506900,+p3@Gpr65
Mm9::chr1:173537509..173537534,-p2@Ly9
Mm9::chr3:106563719..106563730,-p@chr3:106563719..106563730
-


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:0005886plasma membrane0.0289145497558186



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>

Uber Anatomy
Ontology termp-valuen
hemolymphoid system5.47e-2148
immune system5.47e-2148
hematopoietic system1.67e-1945
blood island1.67e-1945
lateral plate mesoderm2.56e-1287
hemopoietic organ1.87e-1129
immune organ1.87e-1129
mesoderm3.82e-10120
mesoderm-derived structure3.82e-10120
presumptive mesoderm3.82e-10120
foregut5.93e-1080
mixed endoderm/mesoderm-derived structure9.19e-1035
gland of gut6.07e-0924
bone marrow6.89e-0916
thymus1.39e-0823
neck1.39e-0823
respiratory system epithelium1.39e-0823
hemolymphoid system gland1.39e-0823
pharyngeal epithelium1.39e-0823
thymic region1.39e-0823
pharyngeal gland1.39e-0823
entire pharyngeal arch endoderm1.39e-0823
thymus primordium1.39e-0823
early pharyngeal endoderm1.39e-0823
endoderm-derived structure1.88e-08118
endoderm1.88e-08118
presumptive endoderm1.88e-08118
digestive system2.31e-08116
digestive tract2.31e-08116
primitive gut2.31e-08116
bone element4.16e-0822
skeletal element4.16e-0822
skeletal system4.16e-0822
pharynx4.97e-0824
upper respiratory tract4.97e-0824
chordate pharynx4.97e-0824
pharyngeal arch system4.97e-0824
pharyngeal region of foregut4.97e-0824
subdivision of digestive tract8.32e-08114
gland2.10e-0765


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)
MA0003.10.0185483
MA0004.10.603793
MA0006.10.419915
MA0007.10.587678
MA0009.11.06266
MA0014.10.0502051
MA0017.11.14026
MA0019.10.874061
MA0024.11.01759
MA0025.11.30092
MA0027.12.72141
MA0028.10.43138
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
MA0051.10.767098
MA0052.11.08379
MA0055.10.0851423
MA0056.10
MA0057.10.192781
MA0058.10.50032
MA0059.10.513699
MA0060.10.881183
MA0061.10.364227
MA0063.10
MA0066.10.746072
MA0067.11.41352
MA0068.10.197245
MA0069.11.08414
MA0070.11.07418
MA0071.10.644448
MA0072.11.06547
MA0073.10.000589538
MA0074.10.708108
MA0076.10.470037
MA0077.11.04318
MA0078.10.801834
MA0081.10.53877
MA0083.11.16099
MA0084.11.74401
MA0087.11.11687
MA0088.10.148348
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
MA0105.10.248108
MA0106.10.809991
MA0107.10.454197
MA0108.20.897859
MA0109.10
MA0111.10.582193
MA0113.10.780358
MA0114.10.361633
MA0115.11.16466
MA0116.10.419688
MA0117.11.13165
MA0119.10.524046
MA0122.11.15196
MA0124.13.01387
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
MA0144.10.365053
MA0145.10.157686
MA0146.10.0604336
MA0147.10.378658
MA0148.11.50563
MA0149.10.529387
MA0062.20.254018
MA0035.20.700704
MA0039.20.0102623
MA0138.20.861035
MA0002.20.299191
MA0137.20.479301
MA0104.20.315156
MA0047.20.75686
MA0112.20.157681
MA0065.20.158101
MA0150.12.44752
MA0151.10
MA0152.10.756973
MA0153.11.21594
MA0154.10.203217
MA0155.10.173445
MA0156.12.05819
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
MA0079.22.95501e-05
MA0102.21.79669
MA0258.10.346619
MA0259.10.366802
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:1633&oldid=2575028"