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MCL coexpression mm9:632: Difference between revisions

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{{MCL_coexpression_mm9
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|tfbs_overrepresentation_for_novel_motifs=0.29262,0.140695,0.269904,0.329881,0.52369,0.907763,0.425757,0.345089,0.362206,0.081847,0.385334,1.06556,0.703175,0.437133,0.555819,0,0.619876,0.170475,0.318616,0.688036,0.670854,1.20521,0.436294,1.00057,0.758244,0.4628,0.304017,0.361771,0.213277,0.231659,0.349031,0.717576,0.973026,0.270473,0.556756,0.732568,0.161521,0.411296,0.445168,0.391645,0.173534,0.353696,0.478787,0.559697,0.0900858,0.319944,0.543674,0.376103,0.401883,1.15963,0.603113,0.488021,0.829247,0.855661,0.87275,0.443782,0.223087,0.40287,0.288386,0.441884,0.698157,0.496904,0.769309,0.592318,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.253722,0.110167,0.126035,0.905636,0.0810502,0.54852,0.270351,0.532872,0.681539,0.242107,0.357936,0.636582,0.495545,0.101814,0.792744,0.0439644,0.0106044,1.29984,0.548334,1.51408,1.07554,0.797601,0.730003,0.535058,0.437593,0.805383,0.694736,0.732731,0.543917,0.0534645,0.161581,0.717305,0.838603,0.603683,0.602672,0.353298,0.660145,0.973236,0.246223,0.240055,0.781068,0.840348,0.243062,0.390066,1.0825,0.986944,0.0135638,0.333247,0.621127,0.931584,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,0.433317,0.723425,1.00525,0.183744,0.821997,0.864341,0.976125,0.456508,1.10385,0.821605,0.300001,0.35497,1.05527,1.88134,1.48237,1.01139,1.19763,0.727736,0.596462,0.354106,0.546641,1.84176,0.302077,0.178088,0.235808,0.103135,0.857198,0.133365,0.455644,0.93735,0.488969,0.57908,0.290467,0.299755,1.06466,0.791909,0.685546,0.284483,0.593295,0.448733,0.484323,0.413167,0.451293
}}

Latest revision as of 15:38, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:115614018..115614024,-p@chr10:115614018..115614024
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Mm9::chr10:116587456..116587469,-p@chr10:116587456..116587469
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Mm9::chr13:16848012..16848016,+p@chr13:16848012..16848016
+
Mm9::chr13:61036988..61037001,+p@chr13:61036988..61037001
+
Mm9::chr14:73110565..73110576,-p@chr14:73110565..73110576
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Mm9::chr1:195068620..195068627,-p5@Hsd11b1
Mm9::chr6:3918364..3918381,-p1@Tfpi2
Mm9::chr6:48522765..48522776,-p2@Rarres2
Mm9::chr7:129057724..129057744,+p@chr7:129057724..129057744
+
Mm9::chr7:134306124..134306160,-p@chr7:134306124..134306160
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Mm9::chr7:96675672..96675683,-p6@Prss23


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:000384511-beta-hydroxysteroid dehydrogenase activity0.0144633758834164



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
embryonic uterus1.53e-224
uterus1.53e-224
female reproductive system1.55e-219
internal female genitalia4.37e-185
female organism1.48e-1711
extraembryonic membrane2.76e-173
extraembryonic structure2.76e-173
membranous layer2.76e-173
female reproductive organ4.24e-178
placenta3.84e-122
chorion3.84e-122
allantois3.84e-122
internal genitalia3.92e-109
reproductive structure3.57e-0726
reproductive system3.57e-0726
uterus or analog5.73e-071
amnion8.36e-071


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)
MA0003.10.0374387
MA0004.10.330313
MA0006.10.186435
MA0007.10.316976
MA0009.10.743257
MA0014.10.00333639
MA0017.10.207884
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.11.56948
MA0038.10.462726
MA0040.10.755433
MA0041.10.729572
MA0042.10.252679
MA0043.10.837621
MA0046.10.778239
MA0048.10.054097
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.735247
MA0056.10
MA0057.10.71676
MA0058.10.246908
MA0059.10.714494
MA0060.10.12537
MA0061.10.451296
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.10.0500842
MA0069.10.76361
MA0070.10.75417
MA0071.10.955636
MA0072.10.745922
MA0073.10.0212456
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.12124
MA0089.10
MA0090.10.299987
MA0091.10.906056
MA0092.10.300264
MA0093.10.20148
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.10.216742
MA0105.10.26272
MA0106.10.509454
MA0107.11.14406
MA0108.20.589413
MA0109.10
MA0111.10.312463
MA0113.10.482899
MA0114.10.145642
MA0115.10.84036
MA0116.10.546914
MA0117.10.808813
MA0119.10.733279
MA0122.10.828211
MA0124.11.02871
MA0125.10.955734
MA0130.10
MA0131.10.563262
MA0132.10
MA0133.10
MA0135.10.873285
MA0136.10.437601
MA0139.10.103495
MA0140.10.408417
MA0141.10.658164
MA0142.10.63775
MA0143.10.49828
MA0144.10.147954
MA0145.10.3137
MA0146.10.183077
MA0147.10.475899
MA0148.10.912216
MA0149.10.269772
MA0062.20.0791588
MA0035.20.412747
MA0039.20.35217
MA0138.20.555696
MA0002.20.343346
MA0137.20.230686
MA0104.20.369356
MA0047.20.46201
MA0112.20.313687
MA0065.20.314773
MA0150.10.849777
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.10.434137
MA0155.10.0394399
MA0156.10.222905
MA0157.10.606944
MA0158.10
MA0159.10.165031
MA0160.10.347545
MA0161.10
MA0162.10.219632
MA0163.10.198448
MA0164.10.437937
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.20.268788
MA0102.21.45844
MA0258.10.135621
MA0259.10.14914
MA0442.10
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