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MCL coexpression mm9:682: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0001533;cornified envelope;0.0243606575800651;20762!GO:0007566;embryo implantation;0.0243606575800651;20762!GO:0030216;keratinocyte differentiation;0.0243606575800651;20762!GO:0031424;keratinization;0.0243606575800651;20762!GO:0009913;epidermal cell differentiation;0.0243606575800651;20762!GO:0042698;menstrual cycle;0.0243606575800651;20762!GO:0007565;female pregnancy;0.0243606575800651;20762!GO:0048730;epidermis morphogenesis;0.025469123031589;20762!GO:0032504;multicellular organism reproduction;0.0283313084370023;20762!GO:0048609;reproductive process in a multicellular organism;0.0283313084370023;20762!GO:0048729;tissue morphogenesis;0.0283313084370023;20762!GO:0008544;epidermis development;0.0322601223294536;20762!GO:0007398;ectoderm development;0.0322601223294536;20762!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000014!1.10e-08!5;UBERON:0001003!1.10e-08!5;UBERON:0002097!1.10e-08!5;UBERON:0002199!1.10e-08!5;UBERON:0007029!1.10e-08!5;UBERON:0007376!1.10e-08!5;UBERON:0002416!1.10e-08!5;UBERON:0007383!1.10e-08!5;UBERON:0003975!3.56e-08!5
|tfbs_overrepresentation_for_novel_motifs=0.795069,0.490989,0.269904,0.878892,0.176699,0.342839,0.425757,0.345089,0.732132,0.081847,0.385334,0.414631,0.703175,0.437133,0.189961,0,0.619876,0.980191,0.656134,0.387499,0.238546,0.521547,0.436294,0.520732,0.276437,2.03716,0.304017,0.361771,0.213277,1.29897,0.349031,0.717576,0.168723,0.570676,0.556756,2.52567,0.161521,0.411296,0.144953,0.782839,0.51597,1.66434,0.478787,0.191571,0.351346,0.856658,0.543674,0.376103,0.081888,1.81207,0.603113,1.22385,0.479906,0.855661,0.87275,1.12875,0.634658,0.40287,1.01274,0.441884,0.698157,0.496904,0.769309,1.44501,0.45416,0.631188,1.00675,1.3527,0.693631,1.20659,0.706068,0.110167,0.299271,0.905636,0.582533,0.0742951,0.570456,0.532872,0.681539,0.242107,1.19172,0.636582,0.495545,0.101814,0.792744,0.00855221,0.760835,1.29984,0.548334,1.51408,1.07554,0.797601,0.730003,0.181374,0.437593,3.28225,0.104462,0.732731,0.543917,0.437273,0.943642,0.717305,0.838603,0.603683,1.46677,0.930972,0.660145,0.372438,0.688705,0.240055,0.286453,0.840348,0.243062,0.390066,1.0825,0.172131,0.0643992,0.333247,0.621127,1.48948,0.910937,0.572279,0.464505,0.532013,1.13603,0.685116,0.433317,0.723425,1.00525,1.03388,0.821997,0.323373,0.976125,2.99438,1.10385,0.0275241,0.300001,0.934673,1.05527,1.88134,1.48237,1.01139,0.475785,0.727736,0.596462,0.354106,0.546641,1.84176,0.302077,0.178088,0.871497,0.252821,1.99431,0.415832,0.455644,0.93735,0.488969,0.199652,0.290467,0.299755,1.06466,0.791909,0.685546,0.284483,1.44706,0.448733,0.160658,0.413167,0.276798
|tfbs_overrepresentation_jaspar=MA0003.1;1.2787,MA0004.1;0.879856,MA0006.1;0.186435,MA0007.1;0.850001,MA0009.1;0.743257,MA0014.1;0.0633827,MA0017.1;2.49862,MA0019.1;0.567591,MA0024.1;0.70077,MA0025.1;0.971686,MA0027.1;2.37948,MA0028.1;0.194782,MA0029.1;0.679737,MA0030.1;0.686088,MA0031.1;0.651724,MA0038.1;0.462726,MA0040.1;0.755433,MA0041.1;0.263922,MA0042.1;0.252679,MA0043.1;0.837621,MA0046.1;0.778239,MA0048.1;0.054097,MA0050.1;0.365212,MA0051.1;0.471092,MA0052.1;0.76328,MA0055.1;0.0098576,MA0056.1;0,MA0057.1;0.71676,MA0058.1;1.9784,MA0059.1;2.03293,MA0060.1;0.395347,MA0061.1;0.147394,MA0063.1;0,MA0066.1;0.452472,MA0067.1;1.08124,MA0068.1;2.10988,MA0069.1;0.76361,MA0070.1;0.75417,MA0071.1;0.364454,MA0072.1;2.95328,MA0073.1;10.4314,MA0074.1;0.419185,MA0076.1;0.223625,MA0077.1;0.724865,MA0078.1;0.502121,MA0081.1;0.277253,MA0083.1;0.836845,MA0084.1;1.4063,MA0087.1;0.794721,MA0088.1;0.534411,MA0089.1;0,MA0090.1;0.299987,MA0091.1;0.342071,MA0092.1;0.300264,MA0093.1;1.10424,MA0095.1;0,MA0098.1;0,MA0100.1;0.408523,MA0101.1;0.265031,MA0103.1;1.16365,MA0105.1;0.94454,MA0106.1;0.509454,MA0107.1;0.211681,MA0108.2;0.589413,MA0109.1;0,MA0111.1;0.312463,MA0113.1;0.482899,MA0114.1;2.0321,MA0115.1;0.84036,MA0116.1;0.186271,MA0117.1;0.808813,MA0119.1;0.265536,MA0122.1;0.828211,MA0124.1;1.02871,MA0125.1;0.955734,MA0130.1;0,MA0131.1;0.563262,MA0132.1;0,MA0133.1;0,MA0135.1;0.873285,MA0136.1;0.437601,MA0139.1;0.103495,MA0140.1;0.408417,MA0141.1;0.658164,MA0142.1;0.63775,MA0143.1;0.49828,MA0144.1;0.147954,MA0145.1;0.0329586,MA0146.1;0.183077,MA0147.1;0.475899,MA0148.1;0.912216,MA0149.1;0.269772,MA0062.2;0.0791588,MA0035.2;0.412747,MA0039.2;0.499196,MA0138.2;0.555696,MA0002.2;0.105469,MA0137.2;0.230686,MA0104.2;0.369356,MA0047.2;0.46201,MA0112.2;0.57262,MA0065.2;5.42084,MA0150.1;0.316876,MA0151.1;0,MA0152.1;0.46211,MA0153.1;0.889592,MA0154.1;1.6326,MA0155.1;0.637282,MA0156.1;0.222905,MA0157.1;0.606944,MA0158.1;0,MA0159.1;4.55672,MA0160.1;0.918217,MA0161.1;0,MA0162.1;0.103104,MA0163.1;10.2596,MA0164.1;0.437937,MA0080.2;0.212408,MA0018.2;0.446948,MA0099.2;0.549696,MA0079.2;19.644,MA0102.2;1.45844,MA0258.1;0.135621,MA0259.1;0.455671,MA0442.1;0
}}

Latest revision as of 15:43, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr3:92189605..92189609,+p1@Sprr2h
Mm9::chr7:29328946..29328963,+p@chr7:29328946..29328963
+
Mm9::chr7:29329001..29329020,-p@chr7:29329001..29329020
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Mm9::chr7:29329001..29329032,+p@chr7:29329001..29329032
+
Mm9::chr7:29329057..29329081,-p@chr7:29329057..29329081
-
Mm9::chr7:29329148..29329160,-p@chr7:29329148..29329160
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Mm9::chr7:29329247..29329259,-p@chr7:29329247..29329259
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Mm9::chr7:29329460..29329471,-p@chr7:29329460..29329471
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Mm9::chr7:29332062..29332106,-p@chr7:29332062..29332106
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Mm9::chr7:29332128..29332139,-p@chr7:29332128..29332139
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Mm9::chr7:31561413..31561429,+p2@Dmkn


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:0001533cornified envelope0.0243606575800651
GO:0007566embryo implantation0.0243606575800651
GO:0030216keratinocyte differentiation0.0243606575800651
GO:0031424keratinization0.0243606575800651
GO:0009913epidermal cell differentiation0.0243606575800651
GO:0042698menstrual cycle0.0243606575800651
GO:0007565female pregnancy0.0243606575800651
GO:0048730epidermis morphogenesis0.025469123031589
GO:0032504multicellular organism reproduction0.0283313084370023
GO:0048609reproductive process in a multicellular organism0.0283313084370023
GO:0048729tissue morphogenesis0.0283313084370023
GO:0008544epidermis development0.0322601223294536
GO:0007398ectoderm development0.0322601223294536



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
zone of skin1.10e-085
skin epidermis1.10e-085
skin of body1.10e-085
integument1.10e-085
surface1.10e-085
outer epithelium1.10e-085
integumental system1.10e-085
enveloping layer of ectoderm1.10e-085
internal female genitalia3.56e-085


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)
MA0003.11.2787
MA0004.10.879856
MA0006.10.186435
MA0007.10.850001
MA0009.10.743257
MA0014.10.0633827
MA0017.12.49862
MA0019.10.567591
MA0024.10.70077
MA0025.10.971686
MA0027.12.37948
MA0028.10.194782
MA0029.10.679737
MA0030.10.686088
MA0031.10.651724
MA0038.10.462726
MA0040.10.755433
MA0041.10.263922
MA0042.10.252679
MA0043.10.837621
MA0046.10.778239
MA0048.10.054097
MA0050.10.365212
MA0051.10.471092
MA0052.10.76328
MA0055.10.0098576
MA0056.10
MA0057.10.71676
MA0058.11.9784
MA0059.12.03293
MA0060.10.395347
MA0061.10.147394
MA0063.10
MA0066.10.452472
MA0067.11.08124
MA0068.12.10988
MA0069.10.76361
MA0070.10.75417
MA0071.10.364454
MA0072.12.95328
MA0073.110.4314
MA0074.10.419185
MA0076.10.223625
MA0077.10.724865
MA0078.10.502121
MA0081.10.277253
MA0083.10.836845
MA0084.11.4063
MA0087.10.794721
MA0088.10.534411
MA0089.10
MA0090.10.299987
MA0091.10.342071
MA0092.10.300264
MA0093.11.10424
MA0095.10
MA0098.10
MA0100.10.408523
MA0101.10.265031
MA0103.11.16365
MA0105.10.94454
MA0106.10.509454
MA0107.10.211681
MA0108.20.589413
MA0109.10
MA0111.10.312463
MA0113.10.482899
MA0114.12.0321
MA0115.10.84036
MA0116.10.186271
MA0117.10.808813
MA0119.10.265536
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
MA0145.10.0329586
MA0146.10.183077
MA0147.10.475899
MA0148.10.912216
MA0149.10.269772
MA0062.20.0791588
MA0035.20.412747
MA0039.20.499196
MA0138.20.555696
MA0002.20.105469
MA0137.20.230686
MA0104.20.369356
MA0047.20.46201
MA0112.20.57262
MA0065.25.42084
MA0150.10.316876
MA0151.10
MA0152.10.46211
MA0153.10.889592
MA0154.11.6326
MA0155.10.637282
MA0156.10.222905
MA0157.10.606944
MA0158.10
MA0159.14.55672
MA0160.10.918217
MA0161.10
MA0162.10.103104
MA0163.110.2596
MA0164.10.437937
MA0080.20.212408
MA0018.20.446948
MA0099.20.549696
MA0079.219.644
MA0102.21.45844
MA0258.10.135621
MA0259.10.455671
MA0442.10
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