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MCL coexpression mm9:692: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002193!1.33e-11!48;UBERON:0002405!1.33e-11!48;UBERON:0000077!4.17e-11!35;UBERON:0004177!7.55e-11!29;UBERON:0005057!7.55e-11!29;UBERON:0002390!2.05e-10!45;UBERON:0003061!2.05e-10!45;UBERON:0003408!1.59e-09!24;UBERON:0001004!2.06e-09!42;UBERON:0006562!3.10e-09!24;UBERON:0001557!3.10e-09!24;UBERON:0001042!3.10e-09!24;UBERON:0008814!3.10e-09!24;UBERON:0009145!3.10e-09!24;UBERON:0001041!4.43e-09!80;UBERON:0004119!4.59e-09!118;UBERON:0000925!4.59e-09!118;UBERON:0006595!4.59e-09!118;UBERON:0002370!4.64e-09!23;UBERON:0000974!4.64e-09!23;UBERON:0004807!4.64e-09!23;UBERON:0005058!4.64e-09!23;UBERON:0003351!4.64e-09!23;UBERON:0009113!4.64e-09!23;UBERON:0003295!4.64e-09!23;UBERON:0009722!4.64e-09!23;UBERON:0005562!4.64e-09!23;UBERON:0007690!4.64e-09!23;UBERON:0000065!5.53e-09!41;UBERON:0001007!6.56e-09!116;UBERON:0001555!6.56e-09!116;UBERON:0007026!6.56e-09!116;UBERON:0004921!2.06e-08!114;UBERON:0003081!2.04e-07!87;UBERON:0000926!3.51e-07!120;UBERON:0004120!3.51e-07!120;UBERON:0006603!3.51e-07!120
|ontology_enrichment_uberon=UBERON:0002193!1.33e-11!48;UBERON:0002405!1.33e-11!48;UBERON:0000077!4.17e-11!35;UBERON:0004177!7.55e-11!29;UBERON:0005057!7.55e-11!29;UBERON:0002390!2.05e-10!45;UBERON:0003061!2.05e-10!45;UBERON:0003408!1.59e-09!24;UBERON:0001004!2.06e-09!42;UBERON:0006562!3.10e-09!24;UBERON:0001557!3.10e-09!24;UBERON:0001042!3.10e-09!24;UBERON:0008814!3.10e-09!24;UBERON:0009145!3.10e-09!24;UBERON:0001041!4.43e-09!80;UBERON:0004119!4.59e-09!118;UBERON:0000925!4.59e-09!118;UBERON:0006595!4.59e-09!118;UBERON:0002370!4.64e-09!23;UBERON:0000974!4.64e-09!23;UBERON:0004807!4.64e-09!23;UBERON:0005058!4.64e-09!23;UBERON:0003351!4.64e-09!23;UBERON:0009113!4.64e-09!23;UBERON:0003295!4.64e-09!23;UBERON:0009722!4.64e-09!23;UBERON:0005562!4.64e-09!23;UBERON:0007690!4.64e-09!23;UBERON:0000065!5.53e-09!41;UBERON:0001007!6.56e-09!116;UBERON:0001555!6.56e-09!116;UBERON:0007026!6.56e-09!116;UBERON:0004921!2.06e-08!114;UBERON:0003081!2.04e-07!87;UBERON:0000926!3.51e-07!120;UBERON:0004120!3.51e-07!120;UBERON:0006603!3.51e-07!120
|tfbs_overrepresentation_for_novel_motifs=0.321524,1.23178,0.297937,0.360062,0.580303,0.975411,0.458558,0.124431,0.411053,0.255527,0.417132,1.13606,0.393382,0.470194,0.613681,0,0.656089,0.564478,0.113609,0.451901,1.34675,0.60924,0.469335,0.577226,0.304728,0.496413,0.709649,0.392919,0.67135,0.572447,0.379806,0.754912,0.191698,0.31333,0.214608,1.19266,0.184038,0.443753,0.166348,0.143746,0.572271,0.38461,0.307718,0.215898,0.0422997,0.349801,0.578773,0.407653,0.255625,0.241306,0.639101,0.522137,0.550735,0.894161,0.911367,0.47699,0.695271,0.435119,0.332535,0.47505,0.735292,0.531188,0.433822,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,0.155003,0.944464,0.659328,0.300089,0.646602,0.567793,0.718494,0.268962,0.406536,0.673009,0.529804,1.24891,0.830765,0.0593483,0.182066,0.572901,0.583509,1.55487,1.11522,0.835661,0.767462,0.592123,3.68571,0.892226,0.388243,0.770215,0.57902,0.234357,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,0.743427,0.421988,1.12221,0.5687,0.212667,0.363536,0.657356,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,0.0358067,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,1.77315,0.581788,1.88287,0.331322,0.201635,1.46048,0.129005,0.895708,0.153911,0.489108,0.976367,0.523103,0.637798,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.53929,0.445669,0.0054279
|tfbs_overrepresentation_for_novel_motifs=0.321524,1.23178,0.297937,0.360062,0.580303,0.975411,0.458558,0.124431,0.411053,0.255527,0.417132,1.13606,0.393382,0.470194,0.613681,0,0.656089,0.564478,0.113609,0.451901,1.34675,0.60924,0.469335,0.577226,0.304728,0.496413,0.709649,0.392919,0.67135,0.572447,0.379806,0.754912,0.191698,0.31333,0.214608,1.19266,0.184038,0.443753,0.166348,0.143746,0.572271,0.38461,0.307718,0.215898,0.0422997,0.349801,0.578773,0.407653,0.255625,0.241306,0.639101,0.522137,0.550735,0.894161,0.911367,0.47699,0.695271,0.435119,0.332535,0.47505,0.735292,0.531188,0.433822,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,0.155003,0.944464,0.659328,0.300089,0.646602,0.567793,0.718494,0.268962,0.406536,0.673009,0.529804,1.24891,0.830765,0.0593483,0.182066,0.572901,0.583509,1.55487,1.11522,0.835661,0.767462,0.592123,3.68571,0.892226,0.388243,0.770215,0.57902,0.234357,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,0.743427,0.421988,1.12221,0.5687,0.212667,0.363536,0.657356,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,0.0358067,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,1.77315,0.581788,1.88287,0.331322,0.201635,1.46048,0.129005,0.895708,0.153911,0.489108,0.976367,0.523103,0.637798,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.53929,0.445669,0.0054279
|tfbs_overrepresentation_jaspar=MA0003.1;0.00561553,MA0004.1;0.360508,MA0006.1;0.210471,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;0.0870561,MA0017.1;0.233089,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;2.57895,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;0.509074,MA0050.1;1.02593,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.17385,MA0056.1;0,MA0057.1;0.216209,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;0.8754,MA0061.1;0.973999,MA0063.1;0,MA0066.1;0.485868,MA0067.1;1.12095,MA0068.1;0.836551,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;0.395679,MA0072.1;0.783532,MA0073.1;0.116023,MA0074.1;0.451832,MA0076.1;1.99258,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;0.973907,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;1.44787,MA0103.1;0.242398,MA0105.1;0.304995,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;0.167085,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;0.121562,MA0140.1;0.440804,MA0141.1;0.259554,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.976447,MA0145.1;0.163161,MA0146.1;0.0389394,MA0147.1;0.179496,MA0148.1;0.375491,MA0149.1;0.806798,MA0062.2;2.18244,MA0035.2;0.44524,MA0039.2;0.204978,MA0138.2;0.590987,MA0002.2;0.781868,MA0137.2;0.713675,MA0104.2;0.134457,MA0047.2;0.495607,MA0112.2;0.0422488,MA0065.2;0.163769,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;0.232525,MA0155.1;0.0498353,MA0156.1;1.28579,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.550545,MA0160.1;0.378276,MA0161.1;0,MA0162.1;0.0488928,MA0163.1;0.439212,MA0164.1;1.1874,MA0080.2;1.9307,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.340295,MA0102.2;1.49914,MA0258.1;0.156336,MA0259.1;0.170828,MA0442.1;0
}}
}}

Revision as of 12:09, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79481586..79481606,-p@chr10:79481586..79481606
-
Mm9::chr13:41582719..41582736,-p3@Nedd9
Mm9::chr13:67433461..67433489,-p2@Zfp595
Mm9::chr17:32661006..32661031,-p@chr17:32661006..32661031
-
Mm9::chr17:71274298..71274343,-p1@ENSMUST00000142133
p1@uc008dlt.1
Mm9::chr2:43832143..43832147,+p@chr2:43832143..43832147
+
Mm9::chr3:106524816..106524872,+p1@4933421E11Rik
Mm9::chr4:154998686..154998743,-p1@ENSMUST00000154931
Mm9::chr5:110487031..110487072,-p@chr5:110487031..110487072
-
Mm9::chr8:23812002..23812051,-p@chr8:23812002..23812051
-


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>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
lymphoid lineage restricted progenitor cell8.09e-0712

Uber Anatomy
Ontology termp-valuen
hemolymphoid system1.33e-1148
immune system1.33e-1148
mixed endoderm/mesoderm-derived structure4.17e-1135
hemopoietic organ7.55e-1129
immune organ7.55e-1129
hematopoietic system2.05e-1045
blood island2.05e-1045
gland of gut1.59e-0924
respiratory system2.06e-0942
pharynx3.10e-0924
upper respiratory tract3.10e-0924
chordate pharynx3.10e-0924
pharyngeal arch system3.10e-0924
pharyngeal region of foregut3.10e-0924
foregut4.43e-0980
endoderm-derived structure4.59e-09118
endoderm4.59e-09118
presumptive endoderm4.59e-09118
thymus4.64e-0923
neck4.64e-0923
respiratory system epithelium4.64e-0923
hemolymphoid system gland4.64e-0923
pharyngeal epithelium4.64e-0923
thymic region4.64e-0923
pharyngeal gland4.64e-0923
entire pharyngeal arch endoderm4.64e-0923
thymus primordium4.64e-0923
early pharyngeal endoderm4.64e-0923
respiratory tract5.53e-0941
digestive system6.56e-09116
digestive tract6.56e-09116
primitive gut6.56e-09116
subdivision of digestive tract2.06e-08114
lateral plate mesoderm2.04e-0787
mesoderm3.51e-07120
mesoderm-derived structure3.51e-07120
presumptive mesoderm3.51e-07120


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)
MA0003.10.00561553
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.0870561
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.12.57895
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
MA0048.10.509074
MA0050.11.02593
MA0051.10.504875
MA0052.10.801048
MA0055.10.17385
MA0056.10
MA0057.10.216209
MA0058.10.273976
MA0059.10.28489
MA0060.10.8754
MA0061.10.973999
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.836551
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.116023
MA0074.10.451832
MA0076.11.99258
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.973907
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.11.44787
MA0103.10.242398
MA0105.10.304995
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
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
MA0139.10.121562
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.976447
MA0145.10.163161
MA0146.10.0389394
MA0147.10.179496
MA0148.10.375491
MA0149.10.806798
MA0062.22.18244
MA0035.20.44524
MA0039.20.204978
MA0138.20.590987
MA0002.20.781868
MA0137.20.713675
MA0104.20.134457
MA0047.20.495607
MA0112.20.0422488
MA0065.20.163769
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.232525
MA0155.10.0498353
MA0156.11.28579
MA0157.10.642984
MA0158.10
MA0159.10.550545
MA0160.10.378276
MA0161.10
MA0162.10.0488928
MA0163.10.439212
MA0164.11.1874
MA0080.21.9307
MA0018.20.480226
MA0099.20.584892
MA0079.20.340295
MA0102.21.49914
MA0258.10.156336
MA0259.10.170828
MA0442.10
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