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MCL coexpression mm9:385: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0048136;male germ-line cyst formation;0.0234208075384868;22026!GO:0005521;lamin binding;0.0234208075384868;208263!GO:0048134;germ-line cyst formation;0.0234208075384868;22026!GO:0048137;spermatocyte division;0.0234208075384868;22026!GO:0004704;NF-kappaB-inducing kinase activity;0.0312200442368718;56420!GO:0005673;transcription factor TFIIE complex;0.0312200442368718;68153!
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!1.42e-08!48;UBERON:0002405!1.42e-08!48;UBERON:0002390!5.28e-08!45;UBERON:0003061!5.28e-08!45
|tfbs_overrepresentation_for_novel_motifs=0.847691,0.818382,0.778176,0.165951,0.0636711,0.175657,0.240519,0.116096,0.298763,0.439781,0.5998,0.231566,0.518576,0.696866,0.0713901,0,1.04644,0.0601435,1.10914,0.215699,0.101766,0.13106,1.28653,0.225711,0.400596,0.745368,0.233681,0.190063,0.604889,0.535987,1.0202,1.23631,0.214529,0.384407,0.911799,0.475036,0.202718,1.2103,0.396493,0.602849,0.0618698,0.541149,0.111877,0.25264,0.742748,0.931275,0.899594,0.582632,0.0804281,0.293801,1.01403,0.793253,0.297906,0.621761,0.63782,0.709407,0.30656,0.222181,0.0858947,0.705824,0.476165,0.299289,0.323654,0.993188,0.729015,0.41591,0.765078,1.10104,0.472057,0.958179,1.19741,0.291401,1.2193,0.66884,0.968192,0.603659,0.19766,0.329879,0.461106,0.104109,0.123342,0.420719,0.807577,0.109746,0.563042,1.21572,0.174419,0.317334,0.908536,1.25993,0.831175,0.56755,0.505205,0.0663617,0.387366,0.150921,0.815011,0.507703,0.900059,0.00870948,0.202817,0.493598,0.605777,0.391523,0.390631,1.03324,1.96668,0.575829,0.346967,1.13643,0.418563,0.607409,0.10474,0.212058,0.837889,0.220154,0.121032,1.54696,0.406964,0.198077,0.673855,0.363969,0.272218,0.329142,0.889642,0.464341,0.246642,1.24772,0.763646,0.239481,0.590261,0.485482,0.735806,0.265613,0.858504,0.127797,0.442998,0.184858,0.811653,1.62404,1.22863,0.769526,0.769996,0.50313,0.385159,0.184199,0.341725,1.58469,0.145585,1.29291,1.1597,1.35175,0.623204,0.647468,0.264901,0.698893,0.795055,0.266327,0.425787,0.869521,0.820693,0.562267,0.464731,0.133047,0.382373,0.259222,0.201311,0.230394,1.74443
|tfbs_overrepresentation_jaspar=MA0003.1;1.4555,MA0004.1;1.5342,MA0006.1;1.86483,MA0007.1;0.473814,MA0009.1;0.517357,MA0014.1;1.174,MA0017.1;0.0822314,MA0019.1;0.359884,MA0024.1;0.47854,MA0025.1;0.731571,MA0027.1;2.12059,MA0028.1;3.17368,MA0029.1;0.459477,MA0030.1;0.465221,MA0031.1;0.434261,MA0038.1;0.745228,MA0040.1;0.528552,MA0041.1;0.118772,MA0042.1;0.11115,MA0043.1;0.604858,MA0046.1;0.549602,MA0048.1;0.26233,MA0050.1;0.562435,MA0051.1;0.761088,MA0052.1;0.535783,MA0055.1;0.0395047,MA0056.1;0,MA0057.1;0.63587,MA0058.1;1.16704,MA0059.1;0.366652,MA0060.1;1.36613,MA0061.1;0.0476315,MA0063.1;0,MA0066.1;0.725822,MA0067.1;0.836675,MA0068.1;0.0406359,MA0069.1;0.536088,MA0070.1;0.52739,MA0071.1;0.192126,MA0072.1;0.519805,MA0073.1;0.0382456,MA0074.1;0.663102,MA0076.1;5.02105,MA0077.1;0.500504,MA0078.1;0.303693,MA0081.1;0.402057,MA0083.1;0.604132,MA0084.1;1.15371,MA0087.1;0.564877,MA0088.1;0.888508,MA0089.1;0,MA0090.1;0.442974,MA0091.1;0.175078,MA0092.1;0.443474,MA0093.1;1.43719,MA0095.1;0,MA0098.1;0,MA0100.1;1.20185,MA0101.1;0.763261,MA0103.1;0.615486,MA0105.1;0.370806,MA0106.1;0.834101,MA0107.1;0.286884,MA0108.2;0.987584,MA0109.1;0,MA0111.1;0.465601,MA0113.1;0.287528,MA0114.1;0.0467203,MA0115.1;0.60742,MA0116.1;0.893143,MA0117.1;0.577975,MA0119.1;0.381144,MA0122.1;0.596061,MA0124.1;1.84818,MA0125.1;0.716372,MA0130.1;0,MA0131.1;0.356119,MA0132.1;0,MA0133.1;0,MA0135.1;0.638323,MA0136.1;1.29051,MA0139.1;0.808412,MA0140.1;0.226598,MA0141.1;0.0982176,MA0142.1;0.421761,MA0143.1;0.300449,MA0144.1;0.405604,MA0145.1;0.466696,MA0146.1;0.517276,MA0147.1;1.16181,MA0148.1;0.17717,MA0149.1;0.12279,MA0062.2;6.43685,MA0035.2;0.230058,MA0039.2;0.738685,MA0138.2;0.922674,MA0002.2;0.115123,MA0137.2;0.319762,MA0104.2;1.27954,MA0047.2;0.270154,MA0112.2;0.287479,MA0065.2;0.288842,MA0150.1;0.156344,MA0151.1;0,MA0152.1;0.270237,MA0153.1;0.653688,MA0154.1;0.256358,MA0155.1;0.791025,MA0156.1;2.78549,MA0157.1;0.394402,MA0158.1;0,MA0159.1;1.21105,MA0160.1;0.179214,MA0161.1;0,MA0162.1;1.32542,MA0163.1;0.752909,MA0164.1;0.250399,MA0080.2;2.06566,MA0018.2;0.257759,MA0099.2;0.344363,MA0079.2;0.522357,MA0102.2;1.20505,MA0258.1;0.161183,MA0259.1;1.56553,MA0442.1;0
}}

Latest revision as of 15:12, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:62364442..62364482,-p2@ENSMUST00000142533
Mm9::chr11:82577834..82577875,+p1@Zfp830
Mm9::chr11:98656485..98656523,+p2@Msl1
Mm9::chr15:100499966..100499991,-p3@ENSMUST00000100198
Mm9::chr16:32419847..32419885,+p1@Tctex1d2
Mm9::chr16:3872286..3872315,-p3@Zfp597
Mm9::chr16:91011485..91011512,+p1@4930404I05Rik
Mm9::chr19:54018926..54018977,-p1@Bbip1
Mm9::chr1:157883155..157883204,-p3@Tor1aip1
Mm9::chr2:122463603..122463659,+p1@AA467197
Mm9::chr3:101728391..101728415,-p1@Slc22a15
Mm9::chr3:104667338..104667368,-p2@Capza1
p2@LOC100504856
Mm9::chr6:136610752..136610773,-p8@Plbd1
Mm9::chr6:72297376..72297384,+p2@0610030E20Rik
Mm9::chr6:92042363..92042413,+p3@Nr2c2
Mm9::chr6:99676395..99676408,-p1@Prok2
Mm9::chr7:133935870..133935879,-p@chr7:133935870..133935879
-
Mm9::chr8:128258113..128258207,+p1@Ntpcr
Mm9::chr8:34842339..34842418,+p2@Gtf2e2
Mm9::chrX:138661308..138661349,+p5@Nxt2


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:0048136male germ-line cyst formation0.0234208075384868
GO:0005521lamin binding0.0234208075384868
GO:0048134germ-line cyst formation0.0234208075384868
GO:0048137spermatocyte division0.0234208075384868
GO:0004704NF-kappaB-inducing kinase activity0.0312200442368718
GO:0005673transcription factor TFIIE complex0.0312200442368718



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
hemolymphoid system1.42e-0848
immune system1.42e-0848
hematopoietic system5.28e-0845
blood island5.28e-0845


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)
MA0003.11.4555
MA0004.11.5342
MA0006.11.86483
MA0007.10.473814
MA0009.10.517357
MA0014.11.174
MA0017.10.0822314
MA0019.10.359884
MA0024.10.47854
MA0025.10.731571
MA0027.12.12059
MA0028.13.17368
MA0029.10.459477
MA0030.10.465221
MA0031.10.434261
MA0038.10.745228
MA0040.10.528552
MA0041.10.118772
MA0042.10.11115
MA0043.10.604858
MA0046.10.549602
MA0048.10.26233
MA0050.10.562435
MA0051.10.761088
MA0052.10.535783
MA0055.10.0395047
MA0056.10
MA0057.10.63587
MA0058.11.16704
MA0059.10.366652
MA0060.11.36613
MA0061.10.0476315
MA0063.10
MA0066.10.725822
MA0067.10.836675
MA0068.10.0406359
MA0069.10.536088
MA0070.10.52739
MA0071.10.192126
MA0072.10.519805
MA0073.10.0382456
MA0074.10.663102
MA0076.15.02105
MA0077.10.500504
MA0078.10.303693
MA0081.10.402057
MA0083.10.604132
MA0084.11.15371
MA0087.10.564877
MA0088.10.888508
MA0089.10
MA0090.10.442974
MA0091.10.175078
MA0092.10.443474
MA0093.11.43719
MA0095.10
MA0098.10
MA0100.11.20185
MA0101.10.763261
MA0103.10.615486
MA0105.10.370806
MA0106.10.834101
MA0107.10.286884
MA0108.20.987584
MA0109.10
MA0111.10.465601
MA0113.10.287528
MA0114.10.0467203
MA0115.10.60742
MA0116.10.893143
MA0117.10.577975
MA0119.10.381144
MA0122.10.596061
MA0124.11.84818
MA0125.10.716372
MA0130.10
MA0131.10.356119
MA0132.10
MA0133.10
MA0135.10.638323
MA0136.11.29051
MA0139.10.808412
MA0140.10.226598
MA0141.10.0982176
MA0142.10.421761
MA0143.10.300449
MA0144.10.405604
MA0145.10.466696
MA0146.10.517276
MA0147.11.16181
MA0148.10.17717
MA0149.10.12279
MA0062.26.43685
MA0035.20.230058
MA0039.20.738685
MA0138.20.922674
MA0002.20.115123
MA0137.20.319762
MA0104.21.27954
MA0047.20.270154
MA0112.20.287479
MA0065.20.288842
MA0150.10.156344
MA0151.10
MA0152.10.270237
MA0153.10.653688
MA0154.10.256358
MA0155.10.791025
MA0156.12.78549
MA0157.10.394402
MA0158.10
MA0159.11.21105
MA0160.10.179214
MA0161.10
MA0162.11.32542
MA0163.10.752909
MA0164.10.250399
MA0080.22.06566
MA0018.20.257759
MA0099.20.344363
MA0079.20.522357
MA0102.21.20505
MA0258.10.161183
MA0259.11.56553
MA0442.10
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