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MCL coexpression mm9:471: Difference between revisions

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{{MCL_coexpression_mm9
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|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!1.70e-19!73;UBERON:0001016!3.37e-18!75;UBERON:0010314!2.02e-16!92;UBERON:0000073!2.48e-16!54;UBERON:0004121!1.34e-15!95;UBERON:0000924!1.34e-15!95;UBERON:0006601!1.34e-15!95;UBERON:0001049!4.76e-15!52;UBERON:0005068!4.76e-15!52;UBERON:0006241!4.76e-15!52;UBERON:0007135!4.76e-15!52;UBERON:0002346!8.61e-15!64;UBERON:0003075!8.61e-15!64;UBERON:0007284!8.61e-15!64;UBERON:0002020!5.16e-14!34;UBERON:0010371!8.95e-14!73;UBERON:0000955!1.51e-12!47;UBERON:0006238!1.51e-12!47;UBERON:0003080!1.83e-12!40;UBERON:0002780!2.16e-12!39;UBERON:0001890!2.16e-12!39;UBERON:0006240!2.16e-12!39;UBERON:0002616!4.53e-12!46;UBERON:0003056!4.76e-12!49;UBERON:0003528!7.94e-11!29;UBERON:0002791!7.94e-11!29;UBERON:0001893!7.94e-11!29;UBERON:0000468!2.26e-09!333;UBERON:0000956!1.74e-07!21;UBERON:0001869!1.74e-07!21;UBERON:0000203!1.74e-07!21;UBERON:0002021!1.80e-07!10;UBERON:0000411!1.80e-07!10;UBERON:0001950!1.80e-07!10;UBERON:0000922!6.03e-07!320
|tfbs_overrepresentation_for_novel_motifs=0.19013,0.00185571,0.171413,0.221468,0.325044,0.656813,0.823081,0.732063,0.0539148,0.166154,0.26934,0.295134,1.58572,0.315149,0.713337,0,0.482714,1.07623,0.043517,0.0703027,1.41426,0.00782037,0.3144,0.322638,0.523846,0.338177,0.0402178,0.694761,0.397744,0.0253598,0.237846,0.574932,1.57738,0.0330098,0.108791,0.178588,0.0875334,0.292182,0.075762,0.0613737,0.0962801,0.241862,0.00637217,0.109711,0.0210161,0.610939,1.05964,0.723497,0.0241728,0.128181,1.17886,0.360991,0.100464,1.68516,0.723811,0.321095,0.133938,0.777175,0.145788,0.319396,0.556492,0.965809,0.0593438,0.456979,0.330403,0.493315,0.854035,1.19441,0.552202,1.05011,0.929954,0.0523282,0.0453067,0.755651,0.137983,0.0305002,0.572907,0.401969,0.540754,0.148967,0.433876,0.498379,0.36783,0.707713,0.646739,0.0847426,0.103037,1.14756,0.416206,1.35441,0.92132,0.6514,0.586758,0.334317,0.073664,2.99306,0.183077,0.589355,0.412133,0.0193059,0.614635,0.574674,0.690844,2.05313,0.466632,0.241519,0.52055,0.25809,0.152257,0.147333,0.185018,0.692526,0.457145,0.273484,0.928143,0.315992,0.606744,1.19286,0.483885,0.289365,0.760792,0.438354,0.339713,0.40118,0.980682,0.544138,0.838247,0.580495,1.98483,0.10384,0.67485,0.215942,0.824167,0.332514,0.949083,0.00756838,0.196278,0.681128,0.901468,1.71991,1.32292,0.85857,0.349901,0.584599,0.46084,1.2608,0.414644,1.68046,0.198013,0.327798,0.110319,0.00625462,0.708784,0.0677483,1.58706,0.786435,0.94989,0.115836,0.188342,0.196072,0.910663,0.645939,0.544546,0.183389,0.457889,0.325532,0.0869123,2.21884,0.00038779
}}

Latest revision as of 15:21, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr6:36665047..36665051,-p8@uc009biz.1
Mm9::chr6:36665465..36665474,-p7@uc009biz.1
Mm9::chr6:36665501..36665520,-p1@uc009biz.1
Mm9::chr6:36665568..36665573,-p9@uc009biz.1
Mm9::chr6:36665592..36665664,-p2@uc009biz.1
Mm9::chr6:36665668..36665685,-p4@uc009biz.1
Mm9::chr6:36665696..36665715,-p6@uc009biz.1
Mm9::chr6:36691391..36691415,-p@chr6:36691391..36691415
-
Mm9::chr6:36691429..36691440,-p@chr6:36691429..36691440
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Mm9::chr6:36693371..36693400,-p@chr6:36693371..36693400
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Mm9::chr6:36693404..36693419,-p@chr6:36693404..36693419
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Mm9::chr6:36760038..36760057,-p6@Ptn
Mm9::chr6:36760071..36760091,-p2@Ptn
Mm9::chr6:36760099..36760126,-p3@Ptn
Mm9::chr6:36760136..36760147,-p8@Ptn
Mm9::chr6:36760161..36760187,-p1@Ptn


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

no results for this coexpression

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
central nervous system1.70e-1973
nervous system3.37e-1875
structure with developmental contribution from neural crest2.02e-1692
regional part of nervous system2.48e-1654
ectoderm-derived structure1.34e-1595
ectoderm1.34e-1595
presumptive ectoderm1.34e-1595
neural tube4.76e-1552
neural rod4.76e-1552
future spinal cord4.76e-1552
neural keel4.76e-1552
neurectoderm8.61e-1564
neural plate8.61e-1564
presumptive neural plate8.61e-1564
gray matter5.16e-1434
ecto-epithelium8.95e-1473
brain1.51e-1247
future brain1.51e-1247
anterior neural tube1.83e-1240
regional part of forebrain2.16e-1239
forebrain2.16e-1239
future forebrain2.16e-1239
regional part of brain4.53e-1246
pre-chordal neural plate4.76e-1249
brain grey matter7.94e-1129
regional part of telencephalon7.94e-1129
telencephalon7.94e-1129
multi-cellular organism2.26e-09333
cerebral cortex1.74e-0721
cerebral hemisphere1.74e-0721
pallium1.74e-0721
occipital lobe1.80e-0710
visual cortex1.80e-0710
neocortex1.80e-0710
embryo6.03e-07320


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)
MA0003.11.68224e-05
MA0004.10.221835
MA0006.10.105852
MA0007.10.210531
MA0009.10.599391
MA0014.10.000362989
MA0017.10.387005
MA0019.10.434009
MA0024.10.558971
MA0025.10.819843
MA0027.12.21717
MA0028.10.112137
MA0029.10.53905
MA0030.10.545058
MA0031.10.512616
MA0038.10.33811
MA0040.10.611015
MA0041.10.498821
MA0042.10.15744
MA0043.10.689898
MA0046.13.77804
MA0048.10.0196258
MA0050.10.701661
MA0051.10.914027
MA0052.10.618515
MA0055.10.00173862
MA0056.10
MA0057.10.381022
MA0058.10.152805
MA0059.10.48573
MA0060.10.0623353
MA0061.10.564632
MA0063.10
MA0066.11.57697
MA0067.10.92691
MA0068.10.0176199
MA0069.10.618831
MA0070.10.609808
MA0071.10.70014
MA0072.10.601934
MA0073.12.89447e-10
MA0074.10.299171
MA0076.10.134359
MA0077.10.581866
MA0078.10.37382
MA0081.10.177433
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.10.67791
MA0089.10
MA0090.10.570974
MA0091.10.231874
MA0092.10.196497
MA0093.10.11723
MA0095.10
MA0098.10
MA0100.10.289731
MA0101.10.167439
MA0103.10.128989
MA0105.10.0314205
MA0106.10.380511
MA0107.10.125067
MA0108.20.454274
MA0109.10
MA0111.11.12477
MA0113.10.356344
MA0114.10.0762439
MA0115.10.692537
MA0116.10.344035
MA0117.10.662171
MA0119.10.16785
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.10.43
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.315568
MA0139.10.0480655
MA0140.10.289637
MA0141.11.38795
MA0142.10.499475
MA0143.10.96857
MA0144.10.0778672
MA0145.10.00977282
MA0146.10.000633445
MA0147.10.0844713
MA0148.14.43898
MA0149.10.171305
MA0062.20.0332891
MA0035.20.293466
MA0039.23.39767e-05
MA0138.20.423003
MA0002.20.049318
MA0137.20.139909
MA0104.20.0556953
MA0047.22.43426
MA0112.20.277674
MA0065.20.00984194
MA0150.10.210447
MA0151.10
MA0152.10.337555
MA0153.10.740107
MA0154.10.0850581
MA0155.10.0125946
MA0156.10.133796
MA0157.10.47062
MA0158.10
MA0159.10.0900717
MA0160.11.23947
MA0161.10
MA0162.10.387966
MA0163.10.000767531
MA0164.10.847515
MA0080.20.396013
MA0018.20.323932
MA0099.21.07172
MA0079.20.00118165
MA0102.21.29919
MA0258.10.893749
MA0259.10.270549
MA0442.10
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