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MCL coexpression mm9:721: Difference between revisions

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{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000219!7.46e-20!54;CL:0002031!3.19e-19!25;CL:0002320!4.70e-19!46;CL:0000134!4.70e-19!46;CL:0000624!2.88e-18!8;CL:0000893!3.19e-18!6;CL:0002489!3.19e-18!6;CL:0000898!3.19e-18!6;CL:0000809!3.19e-18!6;CL:0000810!3.19e-18!6;CL:0000895!3.19e-18!6;CL:0000808!3.19e-18!6;CL:0000894!3.19e-18!6;CL:0000806!3.19e-18!6;CL:0000807!3.19e-18!6;CL:0000805!3.19e-18!6;CL:0002425!3.19e-18!6;CL:0002436!3.19e-18!6;CL:0002427!3.19e-18!6;CL:0002428!3.19e-18!6;CL:0002429!3.19e-18!6;CL:0002433!3.19e-18!6;CL:0002431!3.19e-18!6;CL:0002432!3.19e-18!6;CL:0000988!1.03e-16!32;CL:0002032!1.03e-16!32;CL:0000037!1.03e-16!32;CL:0000566!1.03e-16!32;CL:0000837!1.03e-16!32;CL:0000791!3.86e-16!9;CL:0000789!3.86e-16!9;CL:0002420!3.86e-16!9;CL:0002419!3.86e-16!9;CL:0000790!3.86e-16!9;CL:0000838!2.77e-15!12;CL:0000553!2.56e-14!6;CL:0000556!2.56e-14!6;CL:0000542!5.13e-14!13;CL:0000051!5.13e-14!13;CL:0000084!4.83e-13!11;CL:0000827!4.83e-13!11;CL:0002242!3.66e-11!16;CL:0000738!1.95e-10!17;CL:0002087!1.95e-10!17;CL:0000215!2.00e-10!3;CL:0000034!3.24e-10!97;CL:0000050!1.99e-09!9;CL:0000548!4.67e-08!115;CL:0000255!4.67e-08!115;CL:0000723!9.03e-08!91;CL:0000048!9.03e-08!91;CL:0002371!9.64e-08!118;CL:0000217!2.79e-07!2;CL:0000328!2.79e-07!2;CL:0002573!2.79e-07!2;CL:0002376!2.79e-07!2;CL:0000218!2.79e-07!2;CL:0000692!2.79e-07!2;CL:0002377!2.79e-07!2;CL:0002375!2.79e-07!2
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!4.70e-19!46
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.0145773,0.297937,0.360062,6.96806,0.373426,0.458558,0.785038,0.131493,0.10445,0.417132,0.447169,0.124608,1.18563,0.613681,0,0.656089,0.19356,0.113609,0.0560853,0.26524,0.0365724,2.05901,0.198877,0.304728,0.496413,0.107695,0.392919,0.238759,0.271461,0.379806,0.754912,0.191698,0.0942651,0.214608,0.00653988,0.184038,3.99207,0.166348,0.143746,0.572271,0.38461,0.0320468,0.215898,0.0081642,0.349801,0.578773,0.407653,0.0244624,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,0.47699,0.249055,1.11002,0.101408,0.47505,0.735292,0.531188,0.140453,0.628155,2.11983,0.667546,1.04613,1.3932,0.730718,1.24673,0.281085,0.128829,0.03967,0.944464,0.0968968,0.0893951,0.0942164,0.567793,0.718494,0.268962,0.406536,0.673009,0.529804,0.764135,0.830765,0.0122854,0.357945,0.0791202,0.583509,1.55487,1.11522,0.835661,0.767462,0.205117,0.163126,0.149272,0.388243,0.770215,0.57902,0.0659594,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,0.273261,0.266818,0.315128,0.878738,0.26996,0.421988,1.12221,0.195318,0.0187247,0.363536,1.58124,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.207624,0.86025,0.353344,1.01535,0.48999,1.14365,1.35158,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,1.80495,0.632358,0.385031,0.581788,1.88287,0.331322,0.201635,0.0806411,0.0316649,0.895708,0.153911,0.489108,46.6959,0.523103,0.224422,0.319291,0.328917,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.0054279
}}

Latest revision as of 15:46, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:3109943..3109962,+p@chr12:3109943..3109962
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Mm9::chr12:3110015..3110040,+p@chr12:3110015..3110040
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Mm9::chr2:98502384..98502400,+p1@ENSMUST00000099684
Mm9::chr2:98502406..98502426,+p@chr2:98502406..98502426
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Mm9::chr2:98502989..98503017,+p@chr2:98502989..98503017
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Mm9::chr2:98505234..98505257,+p@chr2:98505234..98505257
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Mm9::chr2:98506955..98506978,+p@chr2:98506955..98506978
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Mm9::chr2:98507304..98507316,-p@chr2:98507304..98507316
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Mm9::chr4:3017818..3017834,+p@chr4:3017818..3017834
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Mm9::chr9:3018760..3018779,+p@chr9:3018760..3018779
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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>

Cell Type
Ontology termp-valuen
motile cell7.46e-2054
hematopoietic lineage restricted progenitor cell3.19e-1925
connective tissue cell4.70e-1946
mesenchymal cell4.70e-1946
CD4-positive, alpha-beta T cell2.88e-188
thymocyte3.19e-186
double negative thymocyte3.19e-186
naive T cell3.19e-186
double-positive, alpha-beta thymocyte3.19e-186
CD4-positive, alpha-beta thymocyte3.19e-186
naive thymus-derived CD4-positive, alpha-beta T cell3.19e-186
DN4 thymocyte3.19e-186
DN1 thymic pro-T cell3.19e-186
DN2 thymocyte3.19e-186
DN3 thymocyte3.19e-186
immature single positive thymocyte3.19e-186
early T lineage precursor3.19e-186
mature CD4 single-positive thymocyte3.19e-186
resting double-positive thymocyte3.19e-186
double-positive blast3.19e-186
CD69-positive double-positive thymocyte3.19e-186
CD69-positive, CD4-positive single-positive thymocyte3.19e-186
CD4-positive, CD8-intermediate double-positive thymocyte3.19e-186
CD24-positive, CD4 single-positive thymocyte3.19e-186
hematopoietic cell1.03e-1632
hematopoietic oligopotent progenitor cell1.03e-1632
hematopoietic stem cell1.03e-1632
angioblastic mesenchymal cell1.03e-1632
hematopoietic multipotent progenitor cell1.03e-1632
mature alpha-beta T cell3.86e-169
alpha-beta T cell3.86e-169
immature T cell3.86e-169
mature T cell3.86e-169
immature alpha-beta T cell3.86e-169
lymphoid lineage restricted progenitor cell2.77e-1512
megakaryocyte progenitor cell2.56e-146
megakaryocyte2.56e-146
lymphocyte5.13e-1413
common lymphoid progenitor5.13e-1413
T cell4.83e-1311
pro-T cell4.83e-1311
nucleate cell3.66e-1116
leukocyte1.95e-1017
nongranular leukocyte1.95e-1017
barrier cell2.00e-103
stem cell3.24e-1097
megakaryocyte-erythroid progenitor cell1.99e-099
animal cell4.67e-08115
eukaryotic cell4.67e-08115
somatic stem cell9.03e-0891
multi fate stem cell9.03e-0891
somatic cell9.64e-08118
insulating cell2.79e-072
myelin accumulating cell2.79e-072
Schwann cell2.79e-072
non-myelinating Schwann cell2.79e-072
myelinating Schwann cell;;Schwann cell2.79e-072
terminal Schwann cell2.79e-072
immature Schwann cell2.79e-072
Schwann cell precursor2.79e-072

Uber Anatomy
Ontology termp-valuen
connective tissue4.70e-1946


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)
MA0003.10.000759843
MA0004.10.360508
MA0006.10.210471
MA0007.10.346734
MA0009.10.780842
MA0014.10.00520703
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
MA0038.12.14884
MA0040.10.79313
MA0041.13.99565
MA0042.14.88248
MA0043.10.875991
MA0046.10.816137
MA0048.10.066679
MA0050.10.396459
MA0051.10.504875
MA0052.10.801048
MA0055.10.0139872
MA0056.10
MA0057.10.059732
MA0058.10.273976
MA0059.10.28489
MA0060.10.145297
MA0061.10.16896
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.0621035
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.17.9919e-07
MA0074.10.451832
MA0076.10.249619
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.14.80786
MA0084.11.44691
MA0087.10.832758
MA0088.10.0379749
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.292867
MA0103.10.242398
MA0105.10.0911942
MA0106.10.543967
MA0107.10.237082
MA0108.20.625209
MA0109.10
MA0111.10.342068
MA0113.10.516916
MA0114.10.167085
MA0115.10.878749
MA0116.10.210297
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.10.598671
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.10.121562
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.10.042251
MA0146.10.00739145
MA0147.10.179496
MA0148.10.979954
MA0149.10.2978
MA0062.20.0948004
MA0035.20.44524
MA0039.20.000236909
MA0138.20.590987
MA0002.20.391079
MA0137.20.257017
MA0104.20.134457
MA0047.20.495607
MA0112.20.0422488
MA0065.20.0424448
MA0150.10.346631
MA0151.10
MA0152.18.07245
MA0153.10.92832
MA0154.10.0653255
MA0155.10.0498353
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.10.378276
MA0161.10
MA0162.10.00972009
MA0163.10.00834216
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.22.0105e-09
MA0102.21.49914
MA0258.10.156336
MA0259.11.56071
MA0442.10
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