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MCL coexpression mm9:712: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003081!3.13e-14!87;UBERON:0002390!3.22e-12!45;UBERON:0003061!3.22e-12!45;UBERON:0002193!3.51e-12!48;UBERON:0002405!3.51e-12!48;UBERON:0000926!1.50e-10!120;UBERON:0004120!1.50e-10!120;UBERON:0006603!1.50e-10!120;UBERON:0001041!1.91e-10!80;UBERON:0001004!1.58e-09!42;UBERON:0000065!2.42e-09!41;UBERON:0000077!1.84e-08!35;UBERON:0004177!3.60e-08!29;UBERON:0005057!3.60e-08!29;UBERON:0000475!1.47e-07!150;UBERON:0002204!2.13e-07!32
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.588611,0.807108,0.360062,1.09907,0.373426,0.458558,0.392928,0.411053,0.479476,0.417132,0.447169,0.124608,0.470194,0.214197,0,0.656089,0.19356,0.113609,0.451901,0.26524,0.60924,0.469335,0.198877,0.304728,0.496413,0.349241,0.392919,0.238759,0.271461,0.379806,0.754912,0.191698,0.31333,0.614653,0.218093,1.63646,1.12869,0.498354,0.442131,0.196807,0.999982,0.0320468,0.215898,0.673106,0.923221,0.578773,1.05036,0.479635,0.677281,0.639101,0.522137,0.550735,0.894161,0.911367,0.47699,0.249055,0.435119,0.332535,0.47505,0.735292,0.531188,0.433822,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,0.76885,0.128829,1.90146,0.944464,1.09617,0.0893951,1.59105,0.567793,0.718494,0.268962,0.406536,0.673009,0.529804,0.119727,0.830765,1.52399,0.182066,0.0791202,0.583509,1.55487,1.11522,0.835661,0.767462,0.592123,0.163126,0.455999,0.122617,0.770215,0.57902,0.234357,0.184103,0.754637,2.03486,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,2.09779,1.08155,1.12221,0.195318,1.79896,0.363536,0.657356,1.02287,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,0.601609,0.329172,1.00286,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,1.10485,1.46048,0.884616,0.895708,0.46758,0.489108,0.976367,0.523103,0.224422,0.319291,0.876739,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,2.70658
}}

Latest revision as of 15:46, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr11:6420875..6420894,-p2@Myo1g
Mm9::chr18:4352942..4352960,-p1@Map3k8
Mm9::chr1:161974505..161974583,+p1@4930523C07Rik
Mm9::chr1:161974784..161974832,+p2@4930523C07Rik
Mm9::chr2:79094846..79094877,-p@chr2:79094846..79094877
-
Mm9::chr3:135354289..135354334,-p3@Nfkb1
Mm9::chr7:117912129..117912148,+p@chr7:117912129..117912148
+
Mm9::chr8:86265072..86265089,-p1@Cd97
Mm9::chrX:93291421..93291455,+p1@Msn
Mm9::chrX:93291456..93291467,+p4@Msn


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:0045083negative regulation of interleukin-12 biosynthetic process0.0449241220621268



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>

Uber Anatomy
Ontology termp-valuen
lateral plate mesoderm3.13e-1487
hematopoietic system3.22e-1245
blood island3.22e-1245
hemolymphoid system3.51e-1248
immune system3.51e-1248
mesoderm1.50e-10120
mesoderm-derived structure1.50e-10120
presumptive mesoderm1.50e-10120
foregut1.91e-1080
respiratory system1.58e-0942
respiratory tract2.42e-0941
mixed endoderm/mesoderm-derived structure1.84e-0835
hemopoietic organ3.60e-0829
immune organ3.60e-0829
organism subdivision1.47e-07150
musculoskeletal system2.13e-0732


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)
MA0003.11.86959
MA0004.10.946922
MA0006.10.604851
MA0007.10.346734
MA0009.10.780842
MA0014.10.795745
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.219287
MA0029.10.716673
MA0030.10.723093
MA0031.10.688336
MA0038.10.496338
MA0040.10.79313
MA0041.10.291712
MA0042.10.279998
MA0043.10.875991
MA0046.10.816137
MA0048.10.236433
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.0660514
MA0056.10
MA0057.10.471918
MA0058.11.37894
MA0059.11.41888
MA0060.10.145297
MA0061.10.973999
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.15.04956
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.745608
MA0074.10.451832
MA0076.10.696577
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.10.34573
MA0089.10
MA0090.10.877277
MA0091.10.372635
MA0092.10.329444
MA0093.11.20057
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.795627
MA0103.10.242398
MA0105.11.0562
MA0106.11.34295
MA0107.11.92665
MA0108.21.51404
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.167085
MA0115.10.878749
MA0116.11.13868
MA0117.10.846964
MA0119.11.44977
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.11.18666
MA0139.10.385513
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.11.55335
MA0145.11.95542
MA0146.11.25057
MA0147.11.01679
MA0148.10.979954
MA0149.10.2978
MA0062.22.18244
MA0035.20.44524
MA0039.21.09654
MA0138.20.590987
MA0002.20.123715
MA0137.20.713675
MA0104.21.34242
MA0047.20.495607
MA0112.20.663994
MA0065.20.163769
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.0653255
MA0155.10.732931
MA0156.10.694831
MA0157.10.642984
MA0158.10
MA0159.10.550545
MA0160.10.378276
MA0161.10
MA0162.12.22848
MA0163.10.252535
MA0164.10.471016
MA0080.21.2443
MA0018.20.480226
MA0099.20.584892
MA0079.24.65538
MA0102.21.49914
MA0258.10.156336
MA0259.10.50935
MA0442.10
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