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MCL coexpression mm9:435: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0000474!2.89e-37!9;UBERON:0003134!7.84e-31!8;UBERON:0003100!1.95e-30!11;UBERON:0000992!4.57e-21!3;UBERON:0005156!1.26e-20!26;UBERON:0000990!1.26e-20!26;UBERON:0004175!4.07e-19!9;UBERON:0003133!1.27e-17!24;UBERON:0003975!2.87e-13!5;UBERON:0001301!7.57e-10!3;UBERON:0006555!7.57e-10!3;UBERON:0005103!7.57e-10!3;UBERON:0000083!7.57e-10!3;UBERON:0009201!7.57e-10!3;UBERON:0004819!7.57e-10!3;UBERON:0006553!7.57e-10!3;UBERON:0003074!7.57e-10!3;UBERON:0003060!7.57e-10!3;UBERON:0001008!9.51e-09!19;UBERON:0000993!1.84e-08!1;UBERON:0006834!2.54e-08!1;UBERON:0000996!3.50e-08!1;UBERON:0005795!4.82e-08!4;UBERON:0000995!4.82e-08!4;UBERON:0002113!8.18e-08!14;UBERON:0003918!8.18e-08!14;UBERON:0011143!8.18e-08!14;UBERON:0005095!8.18e-08!14;UBERON:0007687!8.18e-08!14;UBERON:0000080!1.33e-07!4;UBERON:0005904!1.33e-07!4;UBERON:0006947!1.33e-07!4;UBERON:0002120!1.33e-07!4;UBERON:0004054!1.33e-07!4;UBERON:0004875!1.33e-07!4;UBERON:0004876!1.33e-07!4;UBERON:0005721!1.33e-07!4;UBERON:0005754!1.33e-07!4;UBERON:0007297!1.33e-07!4
|ontology_enrichment_uberon=UBERON:0000474!2.89e-37!9;UBERON:0003134!7.84e-31!8;UBERON:0003100!1.95e-30!11;UBERON:0000992!4.57e-21!3;UBERON:0005156!1.26e-20!26;UBERON:0000990!1.26e-20!26;UBERON:0004175!4.07e-19!9;UBERON:0003133!1.27e-17!24;UBERON:0003975!2.87e-13!5;UBERON:0001301!7.57e-10!3;UBERON:0006555!7.57e-10!3;UBERON:0005103!7.57e-10!3;UBERON:0000083!7.57e-10!3;UBERON:0009201!7.57e-10!3;UBERON:0004819!7.57e-10!3;UBERON:0006553!7.57e-10!3;UBERON:0003074!7.57e-10!3;UBERON:0003060!7.57e-10!3;UBERON:0001008!9.51e-09!19;UBERON:0000993!1.84e-08!1;UBERON:0006834!2.54e-08!1;UBERON:0000996!3.50e-08!1;UBERON:0005795!4.82e-08!4;UBERON:0000995!4.82e-08!4;UBERON:0002113!8.18e-08!14;UBERON:0003918!8.18e-08!14;UBERON:0011143!8.18e-08!14;UBERON:0005095!8.18e-08!14;UBERON:0007687!8.18e-08!14;UBERON:0000080!1.33e-07!4;UBERON:0005904!1.33e-07!4;UBERON:0006947!1.33e-07!4;UBERON:0002120!1.33e-07!4;UBERON:0004054!1.33e-07!4;UBERON:0004875!1.33e-07!4;UBERON:0004876!1.33e-07!4;UBERON:0005721!1.33e-07!4;UBERON:0005754!1.33e-07!4;UBERON:0007297!1.33e-07!4
|tfbs_overrepresentation_for_novel_motifs=0.175413,0.877169,0.157426,0.205657,0.617852,0.618816,0.286882,0.670577,0.398834,0.0604331,0.252112,0.277243,0.165655,0.296787,0.322172,0,0.46143,0.596872,0.0373086,0.53564,0.823639,0.0970082,0.296055,0.294623,0.489022,0.319311,0.923228,0.232181,0.114379,0.230852,0.630968,0.552579,0.590954,0.518279,0.0978183,0.144175,0.0778621,0.274364,0.510225,0.0536011,0.290922,0.225414,0.182703,0.667769,0.287563,0.197508,0.391673,0.244272,0.0604734,0.37148,0.445973,0.341665,0.681799,0.683824,0.700221,0.302599,0.77262,0.26711,0.302464,0.300938,0.534331,0.349585,0.192373,0.43605,0.311703,1.18928,0.829699,1.16897,0.530087,1.02503,0.144846,0.17272,0.00693324,0.731855,0.0291015,0.263994,1.1987,0.381898,0.518764,0.135947,0.696815,0.476893,0.348372,0.157538,0.623727,0.00706257,0.00137583,0.231141,0.395899,1.32869,0.896685,0.62835,1.38593,0.0914951,0.499944,0.0567726,0.370414,0.56686,0.391893,1.27514,1.43314,0.552324,0.667487,1.13461,0.445567,0.225081,0.498793,0.241171,0.139088,0.134388,0.50853,0.669156,0.424252,0.256145,0.903482,0.288262,0.00200355,0.208431,0.462587,1.41339,0.736964,0.4177,0.858612,0.381122,0.955823,0.522111,0.293459,0.558086,0.828246,1.07003,0.651613,0.200314,0.799981,1.52313,0.92434,0.0320829,1.0242,0.64263,0.876916,1.69384,1.29725,0.834212,0.330794,0.562149,0.439856,0.225756,0.394362,1.65442,2.31845,0.0892035,0.0950247,0.00478823,0.685297,0.0594762,0.313008,0.762455,0.907028,0.340691,0.173692,0.181136,0.886073,0.622933,0.522515,0.168927,0.436947,0.306938,0.266569,0.275979,0.0271993
|tfbs_overrepresentation_for_novel_motifs=0.175413,0.877169,0.157426,0.205657,0.617852,0.618816,0.286882,0.670577,0.398834,0.0604331,0.252112,0.277243,0.165655,0.296787,0.322172,0,0.46143,0.596872,0.0373086,0.53564,0.823639,0.0970082,0.296055,0.294623,0.489022,0.319311,0.923228,0.232181,0.114379,0.230852,0.630968,0.552579,0.590954,0.518279,0.0978183,0.144175,0.0778621,0.274364,0.510225,0.0536011,0.290922,0.225414,0.182703,0.667769,0.287563,0.197508,0.391673,0.244272,0.0604734,0.37148,0.445973,0.341665,0.681799,0.683824,0.700221,0.302599,0.77262,0.26711,0.302464,0.300938,0.534331,0.349585,0.192373,0.43605,0.311703,1.18928,0.829699,1.16897,0.530087,1.02503,0.144846,0.17272,0.00693324,0.731855,0.0291015,0.263994,1.1987,0.381898,0.518764,0.135947,0.696815,0.476893,0.348372,0.157538,0.623727,0.00706257,0.00137583,0.231141,0.395899,1.32869,0.896685,0.62835,1.38593,0.0914951,0.499944,0.0567726,0.370414,0.56686,0.391893,1.27514,1.43314,0.552324,0.667487,1.13461,0.445567,0.225081,0.498793,0.241171,0.139088,0.134388,0.50853,0.669156,0.424252,0.256145,0.903482,0.288262,0.00200355,0.208431,0.462587,1.41339,0.736964,0.4177,0.858612,0.381122,0.955823,0.522111,0.293459,0.558086,0.828246,1.07003,0.651613,0.200314,0.799981,1.52313,0.92434,0.0320829,1.0242,0.64263,0.876916,1.69384,1.29725,0.834212,0.330794,0.562149,0.439856,0.225756,0.394362,1.65442,2.31845,0.0892035,0.0950247,0.00478823,0.685297,0.0594762,0.313008,0.762455,0.907028,0.340691,0.173692,0.181136,0.886073,0.622933,0.522515,0.168927,0.436947,0.306938,0.266569,0.275979,0.0271993
|tfbs_overrepresentation_jaspar=MA0003.1;0.00760118,MA0004.1;0.594255,MA0006.1;0.0950487,MA0007.1;0.195085,MA0009.1;0.576798,MA0014.1;0.00867983,MA0017.1;0.722188,MA0019.1;0.413421,MA0024.1;0.536784,MA0025.1;0.795679,MA0027.1;2.19092,MA0028.1;0.100975,MA0029.1;1.28586,MA0030.1;0.523021,MA0031.1;0.490954,MA0038.1;0.319246,MA0040.1;0.588314,MA0041.1;0.906864,MA0042.1;0.442876,MA0043.1;0.666547,MA0046.1;0.609938,MA0048.1;0.191487,MA0050.1;0.235075,MA0051.1;0.871644,MA0052.1;0.595747,MA0055.1;0.273388,MA0056.1;0,MA0057.1;0.169443,MA0058.1;0.431697,MA0059.1;0.451977,MA0060.1;0.0544856,MA0061.1;0.0684878,MA0063.1;0,MA0066.1;0.310219,MA0067.1;0.902253,MA0068.1;0.876728,MA0069.1;0.59606,MA0070.1;0.587119,MA0071.1;0.234437,MA0072.1;0.579318,MA0073.1;0.0457916,MA0074.1;0.281183,MA0076.1;0.122031,MA0077.1;1.3757,MA0078.1;0.933078,MA0081.1;0.490611,MA0083.1;0.665805,MA0084.1;1.22195,MA0087.1;0.625609,MA0088.1;0.101322,MA0089.1;0,MA0090.1;1.02415,MA0091.1;1.15975,MA0092.1;0.181545,MA0093.1;0.700866,MA0095.1;0,MA0098.1;0,MA0100.1;0.271974,MA0101.1;0.153616,MA0103.1;0.373479,MA0105.1;0.0264543,MA0106.1;0.360817,MA0107.1;0.113208,MA0108.2;1.10626,MA0109.1;0,MA0111.1;0.559312,MA0113.1;0.337108,MA0114.1;0.512575,MA0115.1;1.60586,MA0116.1;0.315135,MA0117.1;0.639033,MA0119.1;0.154009,MA0122.1;0.657549,MA0124.1;0.851049,MA0125.1;0.780232,MA0130.1;0,MA0131.1;0.409473,MA0132.1;0,MA0133.1;0,MA0135.1;0.700734,MA0136.1;0.297196,MA0139.1;0.0414323,MA0140.1;0.271883,MA0141.1;0.129134,MA0142.1;0.477975,MA0143.1;0.350815,MA0144.1;0.890316,MA0145.1;0.240392,MA0146.1;0.0136869,MA0147.1;0.0750034,MA0148.1;3.39055,MA0149.1;0.157322,MA0062.2;0.0281188,MA0035.2;0.756371,MA0039.2;0.827733,MA0138.2;0.402586,MA0002.2;0.667016,MA0137.2;0.400341,MA0104.2;0.1822,MA0047.2;0.318614,MA0112.2;0.24038,MA0065.2;0.115152,MA0150.1;0.567944,MA0151.1;0,MA0152.1;0.318703,MA0153.1;0.716409,MA0154.1;0.0721234,MA0155.1;0.0502893,MA0156.1;0.385341,MA0157.1;0.4495,MA0158.1;0,MA0159.1;0.0802352,MA0160.1;0.628052,MA0161.1;0,MA0162.1;0.00501935,MA0163.1;0.00400987,MA0164.1;0.806095,MA0080.2;0.365149,MA0018.2;0.305372,MA0099.2;1.02741,MA0079.2;0.000434317,MA0102.2;1.27355,MA0258.1;0.826775,MA0259.1;0.244906,MA0442.1;0
}}
}}

Revision as of 11:44, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:39252942..39252953,+p5@Fyn
Mm9::chr11:70165531..70165534,-p1@Alox15
Mm9::chr12:80428086..80428118,+p@chr12:80428086..80428118
+
Mm9::chr12:80428226..80428237,+p@chr12:80428226..80428237
+
Mm9::chr14:30823271..30823285,+p@chr14:30823271..30823285
+
Mm9::chr14:70215815..70215841,-p@chr14:70215815..70215841
-
Mm9::chr16:89701685..89701690,-p@chr16:89701685..89701690
-
Mm9::chr19:28635507..28635515,-p@chr19:28635507..28635515
-
Mm9::chr1:194971478..194971490,+p@chr1:194971478..194971490
+
Mm9::chr1:4486594..4486612,-p6@Sox17
Mm9::chr2:49577345..49577376,+p@chr2:49577345..49577376
+
Mm9::chr3:100629375..100629390,+p1@Vtcn1
Mm9::chr3:146212163..146212168,+p@chr3:146212163..146212168
+
Mm9::chr6:117887346..117887361,-p1@Fxyd4
Mm9::chr7:130372393..130372399,+p5@Slc5a11
Mm9::chr7:80383531..80383548,-p@chr7:80383531..80383548
-
Mm9::chr9:122648396..122648402,+p@chr9:122648396..122648402
+


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
female reproductive system2.89e-379
female reproductive organ7.84e-318
female organism1.95e-3011
female gonad4.57e-213
reproductive structure1.26e-2026
reproductive system1.26e-2026
internal genitalia4.07e-199
reproductive organ1.27e-1724
internal female genitalia2.87e-135
epididymis7.57e-103
excretory tube7.57e-103
mesonephric epithelium7.57e-103
mesonephric tubule7.57e-103
nephric duct7.57e-103
kidney epithelium7.57e-103
renal duct7.57e-103
mesonephric duct7.57e-103
pronephric duct7.57e-103
renal system9.51e-0919
oviduct1.84e-081
uterus or analog2.54e-081
vagina3.50e-081
embryonic uterus4.82e-084
uterus4.82e-084
kidney8.18e-0814
kidney mesenchyme8.18e-0814
upper urinary tract8.18e-0814
kidney rudiment8.18e-0814
kidney field8.18e-0814
mesonephros1.33e-074
duct of male reproductive system1.33e-074
male genital duct1.33e-074
pronephros1.33e-074
internal male genitalia1.33e-074
nephrogenic cord1.33e-074
urogenital ridge1.33e-074
pronephric mesoderm1.33e-074
rostral part of nephrogenic cord1.33e-074
presumptive pronephric mesoderm1.33e-074


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)
MA0003.10.00760118
MA0004.10.594255
MA0006.10.0950487
MA0007.10.195085
MA0009.10.576798
MA0014.10.00867983
MA0017.10.722188
MA0019.10.413421
MA0024.10.536784
MA0025.10.795679
MA0027.12.19092
MA0028.10.100975
MA0029.11.28586
MA0030.10.523021
MA0031.10.490954
MA0038.10.319246
MA0040.10.588314
MA0041.10.906864
MA0042.10.442876
MA0043.10.666547
MA0046.10.609938
MA0048.10.191487
MA0050.10.235075
MA0051.10.871644
MA0052.10.595747
MA0055.10.273388
MA0056.10
MA0057.10.169443
MA0058.10.431697
MA0059.10.451977
MA0060.10.0544856
MA0061.10.0684878
MA0063.10
MA0066.10.310219
MA0067.10.902253
MA0068.10.876728
MA0069.10.59606
MA0070.10.587119
MA0071.10.234437
MA0072.10.579318
MA0073.10.0457916
MA0074.10.281183
MA0076.10.122031
MA0077.11.3757
MA0078.10.933078
MA0081.10.490611
MA0083.10.665805
MA0084.11.22195
MA0087.10.625609
MA0088.10.101322
MA0089.10
MA0090.11.02415
MA0091.11.15975
MA0092.10.181545
MA0093.10.700866
MA0095.10
MA0098.10
MA0100.10.271974
MA0101.10.153616
MA0103.10.373479
MA0105.10.0264543
MA0106.10.360817
MA0107.10.113208
MA0108.21.10626
MA0109.10
MA0111.10.559312
MA0113.10.337108
MA0114.10.512575
MA0115.11.60586
MA0116.10.315135
MA0117.10.639033
MA0119.10.154009
MA0122.10.657549
MA0124.10.851049
MA0125.10.780232
MA0130.10
MA0131.10.409473
MA0132.10
MA0133.10
MA0135.10.700734
MA0136.10.297196
MA0139.10.0414323
MA0140.10.271883
MA0141.10.129134
MA0142.10.477975
MA0143.10.350815
MA0144.10.890316
MA0145.10.240392
MA0146.10.0136869
MA0147.10.0750034
MA0148.13.39055
MA0149.10.157322
MA0062.20.0281188
MA0035.20.756371
MA0039.20.827733
MA0138.20.402586
MA0002.20.667016
MA0137.20.400341
MA0104.20.1822
MA0047.20.318614
MA0112.20.24038
MA0065.20.115152
MA0150.10.567944
MA0151.10
MA0152.10.318703
MA0153.10.716409
MA0154.10.0721234
MA0155.10.0502893
MA0156.10.385341
MA0157.10.4495
MA0158.10
MA0159.10.0802352
MA0160.10.628052
MA0161.10
MA0162.10.00501935
MA0163.10.00400987
MA0164.10.806095
MA0080.20.365149
MA0018.20.305372
MA0099.21.02741
MA0079.20.000434317
MA0102.21.27355
MA0258.10.826775
MA0259.10.244906
MA0442.10
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