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MCL coexpression mm9:419: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002193!2.44e-15!48;UBERON:0002405!2.44e-15!48;UBERON:0002465!6.76e-13!3;UBERON:0002106!2.54e-10!6;UBERON:0004457!2.54e-10!6;UBERON:0000042!2.54e-10!6;UBERON:0004854!2.54e-10!6;UBERON:0009034!2.54e-10!6;UBERON:0002095!2.54e-10!6;UBERON:0004782!2.54e-10!6;UBERON:0003281!2.54e-10!6;UBERON:0009664!2.54e-10!6;UBERON:0002296!2.54e-10!6;UBERON:0005602!2.54e-10!6;UBERON:0001179!2.54e-10!6;UBERON:0006293!2.54e-10!6;UBERON:0002390!4.96e-10!45;UBERON:0003061!4.96e-10!45;UBERON:0001962!2.80e-09!2;UBERON:0001961!2.80e-09!2;UBERON:0001744!2.80e-09!2;UBERON:0003887!3.10e-09!10;UBERON:0002371!2.12e-08!16
|ontology_enrichment_uberon=UBERON:0002193!2.44e-15!48;UBERON:0002405!2.44e-15!48;UBERON:0002465!6.76e-13!3;UBERON:0002106!2.54e-10!6;UBERON:0004457!2.54e-10!6;UBERON:0000042!2.54e-10!6;UBERON:0004854!2.54e-10!6;UBERON:0009034!2.54e-10!6;UBERON:0002095!2.54e-10!6;UBERON:0004782!2.54e-10!6;UBERON:0003281!2.54e-10!6;UBERON:0009664!2.54e-10!6;UBERON:0002296!2.54e-10!6;UBERON:0005602!2.54e-10!6;UBERON:0001179!2.54e-10!6;UBERON:0006293!2.54e-10!6;UBERON:0002390!4.96e-10!45;UBERON:0003061!4.96e-10!45;UBERON:0001962!2.80e-09!2;UBERON:0001961!2.80e-09!2;UBERON:0001744!2.80e-09!2;UBERON:0003887!3.10e-09!10;UBERON:0002371!2.12e-08!16
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.0650771,0.144778,0.558894,0.271545,0.583749,0.270195,0.962402,0.15797,0.115943,0.236307,0.260789,0.615635,0.27987,0.615754,0,0.44163,0.937919,0.130179,0.136088,0.772726,0.32474,0.279154,0.568642,0.149704,0.301898,0.849653,0.216938,0.103721,0.203444,0.206597,0.531719,0.257084,0.249044,0.0880674,0.115941,0.0693463,0.257981,0.812295,0.177517,0.265799,0.210373,0.0688446,1.03977,0.0330709,0.183361,0.372907,0.228683,0.116014,0.699131,0.426383,0.323798,0.372474,0.661847,0.67813,0.28555,0.722962,0.25091,0.27058,0.283926,0.513661,0.331566,0.389364,0.4166,0.294453,0.451957,0.806865,1.14503,0.509463,1.00145,0.132733,0.353861,0.00542354,0.709559,0.0246496,0.234413,0.756603,0.363297,0.498264,0.124234,0.997509,0.456892,0.330377,0.592271,0.602212,0.00517576,0.00700265,0.0175925,0.377064,1.30447,0.873554,0.606796,0.543309,0.990746,0.057338,1.12502,0.14406,0.545856,0.373124,0.553251,0.894464,0.531465,0.645628,0.4269,0.425983,0.21005,0.478524,0.640728,0.127231,0.122746,0.157325,0.647285,0.394208,0.240232,0.880323,0.0761019,0.00145901,0.193921,0.442771,0.51371,0.714636,0.398522,0.303371,0.951399,0.932468,0.501574,0.758659,0.53717,0.805419,0.0836776,0.629874,0.186072,0.777296,0.296474,0.9011,0.00454122,0.501821,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.975672,0.0799646,0.0181622,0.00366709,0.66331,0.430566,0.29573,0.739975,0.324625,1.07837,0.483688,0.167568,0.862985,0.601424,0.501973,0.15582,0.417485,0.289792,0.52021,0.259556,0.00651025
|tfbs_overrepresentation_for_novel_motifs=0.162057,0.0650771,0.144778,0.558894,0.271545,0.583749,0.270195,0.962402,0.15797,0.115943,0.236307,0.260789,0.615635,0.27987,0.615754,0,0.44163,0.937919,0.130179,0.136088,0.772726,0.32474,0.279154,0.568642,0.149704,0.301898,0.849653,0.216938,0.103721,0.203444,0.206597,0.531719,0.257084,0.249044,0.0880674,0.115941,0.0693463,0.257981,0.812295,0.177517,0.265799,0.210373,0.0688446,1.03977,0.0330709,0.183361,0.372907,0.228683,0.116014,0.699131,0.426383,0.323798,0.372474,0.661847,0.67813,0.28555,0.722962,0.25091,0.27058,0.283926,0.513661,0.331566,0.389364,0.4166,0.294453,0.451957,0.806865,1.14503,0.509463,1.00145,0.132733,0.353861,0.00542354,0.709559,0.0246496,0.234413,0.756603,0.363297,0.498264,0.124234,0.997509,0.456892,0.330377,0.592271,0.602212,0.00517576,0.00700265,0.0175925,0.377064,1.30447,0.873554,0.606796,0.543309,0.990746,0.057338,1.12502,0.14406,0.545856,0.373124,0.553251,0.894464,0.531465,0.645628,0.4269,0.425983,0.21005,0.478524,0.640728,0.127231,0.122746,0.157325,0.647285,0.394208,0.240232,0.880323,0.0761019,0.00145901,0.193921,0.442771,0.51371,0.714636,0.398522,0.303371,0.951399,0.932468,0.501574,0.758659,0.53717,0.805419,0.0836776,0.629874,0.186072,0.777296,0.296474,0.9011,0.00454122,0.501821,0.607069,0.853868,1.66928,1.27308,0.811357,0.313144,0.541193,0.420352,0.210705,0.375553,1.62988,0.975672,0.0799646,0.0181622,0.00366709,0.66331,0.430566,0.29573,0.739975,0.324625,1.07837,0.483688,0.167568,0.862985,0.601424,0.501973,0.15582,0.417485,0.289792,0.52021,0.259556,0.00651025
|tfbs_overrepresentation_jaspar=MA0003.1;0.000367447,MA0004.1;0.191582,MA0006.1;0.0854592,MA0007.1;1.02294,MA0009.1;0.5557,MA0014.1;0.00134458,MA0017.1;0.673859,MA0019.1;0.394308,MA0024.1;0.516087,MA0025.1;0.773017,MA0027.1;2.16618,MA0028.1;0.0910441,MA0029.1;0.496599,MA0030.1;0.502474,MA0031.1;0.470779,MA0038.1;0.815918,MA0040.1;1.39189,MA0041.1;0.140298,MA0042.1;0.412259,MA0043.1;0.644695,MA0046.1;1.43706,MA0048.1;0.0629374,MA0050.1;0.219748,MA0051.1;0.309072,MA0052.1;0.574473,MA0055.1;0.12934,MA0056.1;0,MA0057.1;0.0539481,MA0058.1;0.127732,MA0059.1;0.13543,MA0060.1;0.180016,MA0061.1;0.218812,MA0063.1;0,MA0066.1;0.293002,MA0067.1;0.879099,MA0068.1;0.309163,MA0069.1;0.574784,MA0070.1;0.565924,MA0071.1;0.219128,MA0072.1;0.558195,MA0073.1;0.0275581,MA0074.1;0.264633,MA0076.1;0.110983,MA0077.1;0.538513,MA0078.1;0.89286,MA0081.1;0.458627,MA0083.1;0.643958,MA0084.1;1.1979,MA0087.1;0.604077,MA0088.1;0.0849312,MA0089.1;0,MA0090.1;0.501796,MA0091.1;0.200988,MA0092.1;0.167962,MA0093.1;0.0955883,MA0095.1;0,MA0098.1;0,MA0100.1;0.710522,MA0101.1;0.435524,MA0103.1;0.345124,MA0105.1;0.0222933,MA0106.1;0.342589,MA0107.1;0.335745,MA0108.2;0.413973,MA0109.1;0,MA0111.1;1.00863,MA0113.1;0.319332,MA0114.1;0.215695,MA0115.1;0.647296,MA0116.1;0.288992,MA0117.1;0.617392,MA0119.1;0.141504,MA0122.1;0.635764,MA0124.1;0.828115,MA0125.1;0.757653,MA0130.1;0,MA0131.1;0.390422,MA0132.1;0,MA0133.1;0,MA0135.1;1.62559,MA0136.1;1.40201,MA0139.1;0.142421,MA0140.1;0.255562,MA0141.1;0.755244,MA0142.1;2.02095,MA0143.1;0.885347,MA0144.1;0.478562,MA0145.1;0.0329339,MA0146.1;0.0100022,MA0147.1;0.0666796,MA0148.1;0.587598,MA0149.1;0.144679,MA0062.2;0.0237736,MA0035.2;0.259203,MA0039.2;0.0352926,MA0138.2;0.383644,MA0002.2;0.611367,MA0137.2;0.747445,MA0104.2;0.0420926,MA0047.2;0.814521,MA0112.2;0.00604704,MA0065.2;0.372253,MA0150.1;0.53401,MA0151.1;0,MA0152.1;0.301303,MA0153.1;0.694211,MA0154.1;0.829187,MA0155.1;0.66805,MA0156.1;0.356573,MA0157.1;0.429861,MA0158.1;0,MA0159.1;0.250417,MA0160.1;0.592791,MA0161.1;0,MA0162.1;0.0145482,MA0163.1;0.0118116,MA0164.1;0.280556,MA0080.2;3.66779,MA0018.2;0.288261,MA0099.2;0.37828,MA0079.2;2.79101e-05,MA0102.2;1.24942,MA0258.1;0.0535937,MA0259.1;0.0616796,MA0442.1;0
}}
}}

Revision as of 11:43, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:75411037..75411078,+p1@Vpreb3
Mm9::chr10:75411080..75411098,+p2@Vpreb3
Mm9::chr11:44388716..44388720,+p@chr11:44388716..44388720
+
Mm9::chr12:115045984..115045990,-p1@LOC100047361
Mm9::chr12:115707771..115707799,-p1@ENSMUST00000109711
Mm9::chr17:8437904..8437915,+p4@Ccr6
Mm9::chr17:8437919..8437957,+p1@Ccr6
Mm9::chr1:87497443..87497454,+p3@Gm2427
p3@Sp140
Mm9::chr2:99640370..99640374,+p@chr2:99640370..99640374
+
Mm9::chr6:122503817..122503834,+p1@Aicda
Mm9::chr6:67505591..67505606,+p1@ENSMUST00000103302
p1@uc012enb.1
Mm9::chr6:68101848..68101850,+p1@ENSMUST00000103318
Mm9::chr6:68424573..68424579,+p@chr6:68424573..68424579
+
Mm9::chr6:68630341..68630348,+p1@ENSMUST00000103329
Mm9::chr6:68889550..68889579,+p1@ENSMUST00000103339
Mm9::chr6:70676952..70676959,-p@chr6:70676952..70676959
-
Mm9::chr9:103351500..103351511,-p6@Bfsp2
Mm9::chr9:70664786..70664801,-p@chr9:70664786..70664801
-


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:0004126cytidine deaminase activity0.0361836203434129
GO:0004945angiotensin type II receptor activity0.0361836203434129
GO:0001595angiotensin receptor activity0.0361836203434129
GO:0016493C-C chemokine receptor activity0.0361836203434129
GO:0019957C-C chemokine binding0.0361836203434129
GO:0019239deaminase activity0.0361836203434129
GO:0016814hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines0.0361836203434129
GO:0001637G-protein chemoattractant receptor activity0.0361836203434129
GO:0004950chemokine receptor activity0.0361836203434129
GO:0019956chemokine binding0.0361836203434129
GO:0005212structural constituent of eye lens0.0361836203434129



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>


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)
MA0003.10.000367447
MA0004.10.191582
MA0006.10.0854592
MA0007.11.02294
MA0009.10.5557
MA0014.10.00134458
MA0017.10.673859
MA0019.10.394308
MA0024.10.516087
MA0025.10.773017
MA0027.12.16618
MA0028.10.0910441
MA0029.10.496599
MA0030.10.502474
MA0031.10.470779
MA0038.10.815918
MA0040.11.39189
MA0041.10.140298
MA0042.10.412259
MA0043.10.644695
MA0046.11.43706
MA0048.10.0629374
MA0050.10.219748
MA0051.10.309072
MA0052.10.574473
MA0055.10.12934
MA0056.10
MA0057.10.0539481
MA0058.10.127732
MA0059.10.13543
MA0060.10.180016
MA0061.10.218812
MA0063.10
MA0066.10.293002
MA0067.10.879099
MA0068.10.309163
MA0069.10.574784
MA0070.10.565924
MA0071.10.219128
MA0072.10.558195
MA0073.10.0275581
MA0074.10.264633
MA0076.10.110983
MA0077.10.538513
MA0078.10.89286
MA0081.10.458627
MA0083.10.643958
MA0084.11.1979
MA0087.10.604077
MA0088.10.0849312
MA0089.10
MA0090.10.501796
MA0091.10.200988
MA0092.10.167962
MA0093.10.0955883
MA0095.10
MA0098.10
MA0100.10.710522
MA0101.10.435524
MA0103.10.345124
MA0105.10.0222933
MA0106.10.342589
MA0107.10.335745
MA0108.20.413973
MA0109.10
MA0111.11.00863
MA0113.10.319332
MA0114.10.215695
MA0115.10.647296
MA0116.10.288992
MA0117.10.617392
MA0119.10.141504
MA0122.10.635764
MA0124.10.828115
MA0125.10.757653
MA0130.10
MA0131.10.390422
MA0132.10
MA0133.10
MA0135.11.62559
MA0136.11.40201
MA0139.10.142421
MA0140.10.255562
MA0141.10.755244
MA0142.12.02095
MA0143.10.885347
MA0144.10.478562
MA0145.10.0329339
MA0146.10.0100022
MA0147.10.0666796
MA0148.10.587598
MA0149.10.144679
MA0062.20.0237736
MA0035.20.259203
MA0039.20.0352926
MA0138.20.383644
MA0002.20.611367
MA0137.20.747445
MA0104.20.0420926
MA0047.20.814521
MA0112.20.00604704
MA0065.20.372253
MA0150.10.53401
MA0151.10
MA0152.10.301303
MA0153.10.694211
MA0154.10.829187
MA0155.10.66805
MA0156.10.356573
MA0157.10.429861
MA0158.10
MA0159.10.250417
MA0160.10.592791
MA0161.10
MA0162.10.0145482
MA0163.10.0118116
MA0164.10.280556
MA0080.23.66779
MA0018.20.288261
MA0099.20.37828
MA0079.22.79101e-05
MA0102.21.24942
MA0258.10.0535937
MA0259.10.0616796
MA0442.10
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