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MCL coexpression mm9:542: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004119!2.19e-17!118;UBERON:0000925!2.19e-17!118;UBERON:0006595!2.19e-17!118;UBERON:0001007!5.56e-17!116;UBERON:0001555!5.56e-17!116;UBERON:0007026!5.56e-17!116;UBERON:0004921!1.93e-16!114;UBERON:0002193!8.38e-11!48;UBERON:0002405!8.38e-11!48;UBERON:0005911!2.75e-10!69;UBERON:0000490!5.50e-10!66;UBERON:0002390!8.46e-10!45;UBERON:0003061!8.46e-10!45;UBERON:0003929!6.12e-09!55;UBERON:0001041!7.36e-09!80;UBERON:0005409!7.55e-08!47;UBERON:0000077!7.73e-08!35;UBERON:0003081!2.39e-07!87;UBERON:0004923!3.88e-07!24;UBERON:0000160!5.27e-07!31;UBERON:0004177!8.10e-07!29;UBERON:0005057!8.10e-07!29
|ontology_enrichment_uberon=UBERON:0004119!2.19e-17!118;UBERON:0000925!2.19e-17!118;UBERON:0006595!2.19e-17!118;UBERON:0001007!5.56e-17!116;UBERON:0001555!5.56e-17!116;UBERON:0007026!5.56e-17!116;UBERON:0004921!1.93e-16!114;UBERON:0002193!8.38e-11!48;UBERON:0002405!8.38e-11!48;UBERON:0005911!2.75e-10!69;UBERON:0000490!5.50e-10!66;UBERON:0002390!8.46e-10!45;UBERON:0003061!8.46e-10!45;UBERON:0003929!6.12e-09!55;UBERON:0001041!7.36e-09!80;UBERON:0005409!7.55e-08!47;UBERON:0000077!7.73e-08!35;UBERON:0003081!2.39e-07!87;UBERON:0004923!3.88e-07!24;UBERON:0000160!5.27e-07!31;UBERON:0004177!8.10e-07!29;UBERON:0005057!8.10e-07!29
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.0679776,1.11498,0.25808,0.781942,0.269875,0.915684,0.0669598,0.536572,0.415336,0.308886,0.336042,0.511203,0.357027,0.419678,0,0.530547,0.118546,0.470307,0.100162,0.176628,0.554623,0.356242,0.388504,0.210021,0.381085,0.781016,0.287195,0.154744,0.145734,0.275529,0.624931,0.117091,0.397142,0.420513,0.61925,0.111136,0.332941,0.322338,0.581324,0.384293,0.279796,1.08698,0.136236,0.486712,0.695306,0.457618,0.300372,0.237017,0.474834,1.28025,0.404841,0.584697,0.759566,0.776306,0.363247,0.163199,0.325117,0.424359,0.36147,0.606104,0.413233,0.569343,0.504093,0.372973,0.541429,0.908031,1.25063,1.46477,1.10561,0.189925,0.526777,0.351968,0.808562,0.181606,0.0433214,0.396955,0.447339,0.590017,2.29423,0.530081,0.546623,1.05972,0.849185,0.69807,0.41341,0.0697055,0.338558,0.462057,1.41118,0.975915,0.702809,0.636995,0.127646,0.0951738,0.287636,0.503836,0.639644,0.457849,0.119684,0.725622,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.296997,1.03226,0.526725,1.17217,0.744577,0.180573,0.313258,0.982794,0.119923,0.544524,0.723174,1.31704,0.352143,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.406303,0.726634,0.252176,0.877862,0.375176,1.0039,0.323891,0.65343,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.124893,0.971228,0.0106906,0.761071,0.0882878,1.73629,0.839715,0.405736,0.143092,0.222538,0.230865,0.96517,0.697256,0.593895,0.620756,0.50503,0.963204,0.356446,0.33468,0.134465
|tfbs_overrepresentation_for_novel_motifs=0.224466,0.0679776,1.11498,0.25808,0.781942,0.269875,0.915684,0.0669598,0.536572,0.415336,0.308886,0.336042,0.511203,0.357027,0.419678,0,0.530547,0.118546,0.470307,0.100162,0.176628,0.554623,0.356242,0.388504,0.210021,0.381085,0.781016,0.287195,0.154744,0.145734,0.275529,0.624931,0.117091,0.397142,0.420513,0.61925,0.111136,0.332941,0.322338,0.581324,0.384293,0.279796,1.08698,0.136236,0.486712,0.695306,0.457618,0.300372,0.237017,0.474834,1.28025,0.404841,0.584697,0.759566,0.776306,0.363247,0.163199,0.325117,0.424359,0.36147,0.606104,0.413233,0.569343,0.504093,0.372973,0.541429,0.908031,1.25063,1.46477,1.10561,0.189925,0.526777,0.351968,0.808562,0.181606,0.0433214,0.396955,0.447339,0.590017,2.29423,0.530081,0.546623,1.05972,0.849185,0.69807,0.41341,0.0697055,0.338558,0.462057,1.41118,0.975915,0.702809,0.636995,0.127646,0.0951738,0.287636,0.503836,0.639644,0.457849,0.119684,0.725622,0.624668,0.742871,0.514993,0.514023,0.279432,0.569344,0.296997,1.03226,0.526725,1.17217,0.744577,0.180573,0.313258,0.982794,0.119923,0.544524,0.723174,1.31704,0.352143,0.813766,0.484912,0.382687,0.446521,1.03573,0.593478,0.353461,0.630607,0.906557,0.406303,0.726634,0.252176,0.877862,0.375176,1.0039,0.323891,0.65343,0.280962,0.955897,1.77738,1.3796,0.91261,0.393303,0.634793,0.508066,0.280171,0.460443,1.73788,0.232952,0.124893,0.971228,0.0106906,0.761071,0.0882878,1.73629,0.839715,0.405736,0.143092,0.222538,0.230865,0.96517,0.697256,0.593895,0.620756,0.50503,0.963204,0.356446,0.33468,0.134465
|tfbs_overrepresentation_jaspar=MA0003.1;0.27603,MA0004.1;0.258473,MA0006.1;0.412095,MA0007.1;0.246385,MA0009.1;0.649874,MA0014.1;0.758802,MA0017.1;0.150118,MA0019.1;0.480432,MA0024.1;0.608636,MA0025.1;0.873493,MA0027.1;2.275,MA0028.1;0.430035,MA0029.1;0.588275,MA0030.1;0.594419,MA0031.1;0.561217,MA0038.1;0.381016,MA0040.1;0.661716,MA0041.1;0.198922,MA0042.1;1.05492,MA0043.1;0.74191,MA0046.1;0.683926,MA0048.1;0.84922,MA0050.1;8.27923,MA0051.1;7.04647,MA0052.1;0.669354,MA0055.1;0.45021,MA0056.1;0,MA0057.1;0.78569,MA0058.1;1.03467,MA0059.1;0.563468,MA0060.1;0.989444,MA0061.1;0.671982,MA0063.1;0,MA0066.1;0.371389,MA0067.1;0.981551,MA0068.1;3.15511,MA0069.1;0.669676,MA0070.1;0.660488,MA0071.1;0.289658,MA0072.1;0.652465,MA0073.1;2.56907,MA0074.1;0.340281,MA0076.1;0.163664,MA0077.1;0.632005,MA0078.1;0.418168,MA0081.1;1.14043,MA0083.1;0.741151,MA0084.1;1.30392,MA0087.1;0.699999,MA0088.1;0.171343,MA0089.1;0,MA0090.1;0.231074,MA0091.1;0.269175,MA0092.1;0.231323,MA0093.1;0.444403,MA0095.1;0,MA0098.1;0,MA0100.1;0.330364,MA0101.1;0.57968,MA0103.1;0.157724,MA0105.1;0.385363,MA0106.1;0.425111,MA0107.1;0.909471,MA0108.2;0.50131,MA0109.1;0,MA0111.1;0.679612,MA0113.1;0.400008,MA0114.1;0.323836,MA0115.1;0.744589,MA0116.1;0.411741,MA0117.1;0.713754,MA0119.1;1.0998,MA0122.1;0.732707,MA0124.1;0.929684,MA0125.1;0.857794,MA0130.1;0,MA0131.1;0.476296,MA0132.1;0,MA0133.1;0,MA0135.1;0.77683,MA0136.1;0.357464,MA0139.1;0.499924,MA0140.1;0.330266,MA0141.1;0.171891,MA0142.1;0.547747,MA0143.1;0.414534,MA0144.1;0.328866,MA0145.1;0.370377,MA0146.1;0.0854135,MA0147.1;0.349075,MA0148.1;0.271704,MA0149.1;0.204102,MA0062.2;0.39919,MA0035.2;0.33429,MA0039.2;2.88069,MA0138.2;0.469076,MA0002.2;0.87145,MA0137.2;0.97737,MA0104.2;0.0740839,MA0047.2;0.380343,MA0112.2;0.614664,MA0065.2;0.371748,MA0150.1;0.246295,MA0151.1;0,MA0152.1;0.380437,MA0153.1;0.792819,MA0154.1;0.525346,MA0155.1;0.22104,MA0156.1;0.163042,MA0157.1;0.518122,MA0158.1;0,MA0159.1;0.365914,MA0160.1;0.274172,MA0161.1;0,MA0162.1;0.767982,MA0163.1;2.32191,MA0164.1;1.67861,MA0080.2;0.912084,MA0018.2;0.366212,MA0099.2;0.463355,MA0079.2;4.37443,MA0102.2;1.35579,MA0258.1;1.04836,MA0259.1;0.678628,MA0442.1;0
}}
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Revision as of 11:55, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:56223010..56223067,+p1@Irf9
Mm9::chr16:35939027..35939065,-p3@Dtx3l
Mm9::chr1:52176315..52176343,+p1@Stat1
Mm9::chr1:58768332..58768367,+p2@Cflar
Mm9::chr3:89534657..89534708,+p2@Adar
Mm9::chr4:40186812..40186864,-p1@Ddx58
Mm9::chr5:137592047..137592089,-p1@Trim56
Mm9::chr5:36924464..36924494,-p4@Tbc1d14
Mm9::chr7:109713939..109713988,-p1@Trim21
Mm9::chr7:111501842..111501908,-p1@LOC675296
p1@Trim12c
Mm9::chr7:17428245..17428303,+p1@Prkd2
Mm9::chr8:47825107..47825145,+p1@Irf2
Mm9::chr8:64406878..64406891,+p2@Ddx60
Mm9::chr9:107877860..107877932,+p1@Uba7


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
endoderm-derived structure2.19e-17118
endoderm2.19e-17118
presumptive endoderm2.19e-17118
digestive system5.56e-17116
digestive tract5.56e-17116
primitive gut5.56e-17116
subdivision of digestive tract1.93e-16114
hemolymphoid system8.38e-1148
immune system8.38e-1148
endo-epithelium2.75e-1069
unilaminar epithelium5.50e-1066
hematopoietic system8.46e-1045
blood island8.46e-1045
gut epithelium6.12e-0955
foregut7.36e-0980
gastrointestinal system7.55e-0847
mixed endoderm/mesoderm-derived structure7.73e-0835
lateral plate mesoderm2.39e-0787
organ component layer3.88e-0724
intestine5.27e-0731
hemopoietic organ8.10e-0729
immune organ8.10e-0729


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)
MA0003.10.27603
MA0004.10.258473
MA0006.10.412095
MA0007.10.246385
MA0009.10.649874
MA0014.10.758802
MA0017.10.150118
MA0019.10.480432
MA0024.10.608636
MA0025.10.873493
MA0027.12.275
MA0028.10.430035
MA0029.10.588275
MA0030.10.594419
MA0031.10.561217
MA0038.10.381016
MA0040.10.661716
MA0041.10.198922
MA0042.11.05492
MA0043.10.74191
MA0046.10.683926
MA0048.10.84922
MA0050.18.27923
MA0051.17.04647
MA0052.10.669354
MA0055.10.45021
MA0056.10
MA0057.10.78569
MA0058.11.03467
MA0059.10.563468
MA0060.10.989444
MA0061.10.671982
MA0063.10
MA0066.10.371389
MA0067.10.981551
MA0068.13.15511
MA0069.10.669676
MA0070.10.660488
MA0071.10.289658
MA0072.10.652465
MA0073.12.56907
MA0074.10.340281
MA0076.10.163664
MA0077.10.632005
MA0078.10.418168
MA0081.11.14043
MA0083.10.741151
MA0084.11.30392
MA0087.10.699999
MA0088.10.171343
MA0089.10
MA0090.10.231074
MA0091.10.269175
MA0092.10.231323
MA0093.10.444403
MA0095.10
MA0098.10
MA0100.10.330364
MA0101.10.57968
MA0103.10.157724
MA0105.10.385363
MA0106.10.425111
MA0107.10.909471
MA0108.20.50131
MA0109.10
MA0111.10.679612
MA0113.10.400008
MA0114.10.323836
MA0115.10.744589
MA0116.10.411741
MA0117.10.713754
MA0119.11.0998
MA0122.10.732707
MA0124.10.929684
MA0125.10.857794
MA0130.10
MA0131.10.476296
MA0132.10
MA0133.10
MA0135.10.77683
MA0136.10.357464
MA0139.10.499924
MA0140.10.330266
MA0141.10.171891
MA0142.10.547747
MA0143.10.414534
MA0144.10.328866
MA0145.10.370377
MA0146.10.0854135
MA0147.10.349075
MA0148.10.271704
MA0149.10.204102
MA0062.20.39919
MA0035.20.33429
MA0039.22.88069
MA0138.20.469076
MA0002.20.87145
MA0137.20.97737
MA0104.20.0740839
MA0047.20.380343
MA0112.20.614664
MA0065.20.371748
MA0150.10.246295
MA0151.10
MA0152.10.380437
MA0153.10.792819
MA0154.10.525346
MA0155.10.22104
MA0156.10.163042
MA0157.10.518122
MA0158.10
MA0159.10.365914
MA0160.10.274172
MA0161.10
MA0162.10.767982
MA0163.12.32191
MA0164.11.67861
MA0080.20.912084
MA0018.20.366212
MA0099.20.463355
MA0079.24.37443
MA0102.21.35579
MA0258.11.04836
MA0259.10.678628
MA0442.10
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