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MCL coexpression mm9:695: Difference between revisions

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{{MCL_coexpression_mm9
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cytoskeleton;0.010513171268616;74019,104346,319991!GO:0042527;negative regulation of tyrosine phosphorylation of Stat6 protein;0.0117498832881236;74019!GO:0042505;tyrosine phosphorylation of Stat6 protein;0.0117498832881236;74019!GO:0042525;regulation of tyrosine phosphorylation of Stat6 protein;0.0117498832881236;74019!GO:0043232;intracellular non-membrane-bound organelle;0.0117498832881236;75339,74019,104346,319991!GO:0043228;non-membrane-bound organelle;0.0117498832881236;75339,74019,104346,319991!GO:0050732;negative regulation of peptidyl-tyrosine phosphorylation;0.0117498832881236;74019!GO:0042532;negative regulation of tyrosine phosphorylation of STAT protein;0.0117498832881236;74019!GO:0046426;negative regulation of JAK-STAT cascade;0.0128162988067131;74019!GO:0042326;negative regulation of phosphorylation;0.0128162988067131;74019!GO:0045936;negative regulation of phosphate metabolic process;0.0128162988067131;74019!GO:0005874;microtubule;0.0189395092156769;104346,319991!GO:0005856;cytoskeleton;0.0205308899203803;74019,104346,319991!GO:0033239;negative regulation of amine metabolic process;0.0205482177766548;74019!GO:0001933;negative regulation of protein amino acid phosphorylation;0.0205482177766548;74019!GO:0045763;negative regulation of amino acid metabolic process;0.0205482177766548;74019!GO:0042509;regulation of tyrosine phosphorylation of STAT protein;0.024858259520906;74019!GO:0051101;regulation of DNA binding;0.0260822551445187;74019!GO:0007260;tyrosine phosphorylation of STAT protein;0.029643284328871;74019!GO:0046425;regulation of JAK-STAT cascade;0.0305037018392697;74019!GO:0051098;regulation of binding;0.0446512394951314;74019!GO:0030317;sperm motility;0.0447465908164342;104346!GO:0009434;microtubule-based 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|gostat_on_MCL_coexpression=GO:0015630;microtubule cytoskeleton;0.010513171268616;74019,104346,319991!GO:0042527;negative regulation of tyrosine phosphorylation of Stat6 protein;0.0117498832881236;74019!GO:0042505;tyrosine phosphorylation of Stat6 protein;0.0117498832881236;74019!GO:0042525;regulation of tyrosine phosphorylation of Stat6 protein;0.0117498832881236;74019!GO:0043232;intracellular non-membrane-bound organelle;0.0117498832881236;75339,74019,104346,319991!GO:0043228;non-membrane-bound organelle;0.0117498832881236;75339,74019,104346,319991!GO:0050732;negative regulation of peptidyl-tyrosine phosphorylation;0.0117498832881236;74019!GO:0042532;negative regulation of tyrosine phosphorylation of STAT protein;0.0117498832881236;74019!GO:0046426;negative regulation of JAK-STAT cascade;0.0128162988067131;74019!GO:0042326;negative regulation of phosphorylation;0.0128162988067131;74019!GO:0045936;negative regulation of phosphate metabolic process;0.0128162988067131;74019!GO:0005874;microtubule;0.0189395092156769;104346,319991!GO:0005856;cytoskeleton;0.0205308899203803;74019,104346,319991!GO:0033239;negative regulation of amine metabolic process;0.0205482177766548;74019!GO:0001933;negative regulation of protein amino acid phosphorylation;0.0205482177766548;74019!GO:0045763;negative regulation of amino acid metabolic process;0.0205482177766548;74019!GO:0042509;regulation of tyrosine phosphorylation of STAT protein;0.024858259520906;74019!GO:0051101;regulation of DNA binding;0.0260822551445187;74019!GO:0007260;tyrosine phosphorylation of STAT protein;0.029643284328871;74019!GO:0046425;regulation of JAK-STAT cascade;0.0305037018392697;74019!GO:0051098;regulation of binding;0.0446512394951314;74019!GO:0030317;sperm motility;0.0447465908164342;104346!GO:0009434;microtubule-based flagellum;0.0468645424416261;104346!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0010371!2.03e-13!73;UBERON:0002346!2.79e-13!64;UBERON:0003075!2.79e-13!64;UBERON:0007284!2.79e-13!64;UBERON:0004121!2.23e-12!95;UBERON:0000924!2.23e-12!95;UBERON:0006601!2.23e-12!95;UBERON:0003056!5.24e-12!49;UBERON:0000073!2.37e-11!54;UBERON:0001049!7.73e-11!52;UBERON:0005068!7.73e-11!52;UBERON:0006241!7.73e-11!52;UBERON:0007135!7.73e-11!52;UBERON:0001017!8.90e-11!73;UBERON:0000955!2.30e-10!47;UBERON:0006238!2.30e-10!47;UBERON:0001016!2.43e-10!75;UBERON:0002616!7.75e-10!46;UBERON:0003080!1.48e-09!40;UBERON:0002780!4.51e-09!39;UBERON:0001890!4.51e-09!39;UBERON:0006240!4.51e-09!39;UBERON:0010314!2.08e-08!92;UBERON:0000468!2.25e-07!333
|tfbs_overrepresentation_for_novel_motifs=0.860199,1.6297,1.46622,0.360062,0.200163,0.373426,1.16061,0.124431,0.816027,0.771958,1.071,0.447169,1.28029,1.18563,0.613681,0,0.656089,0.19356,0.736624,0.205418,0.26524,0.336916,0.469335,0.577226,1.4907,0.496413,0.107695,0.392919,0.238759,0.271461,0.989437,0.754912,0.191698,0.646834,0.214608,0.6066,0.541514,0.443753,0.498354,0.442131,0.196807,0.999982,0.130272,0.215898,1.29974,0.923221,0.578773,0.407653,0.104497,0.241306,0.639101,1.29662,0.550735,0.894161,0.911367,0.47699,0.249055,1.11002,1.12723,1.19606,0.735292,1.31585,0.433822,1.52021,1.22293,0.667546,1.04613,1.3932,0.730718,1.24673,0.76885,0.128829,1.41981,0.944464,1.09617,0.0893951,0.313198,1.39333,0.718494,0.268962,0.406536,0.673009,0.529804,0.380754,0.830765,2.91519,0.182066,0.271714,1.42647,1.55487,1.11522,0.835661,0.767462,0.592123,0.163126,0.149272,0.122617,0.770215,0.57902,2.39064,0.184103,0.754637,0.87698,0.639679,0.638654,1.77029,0.696857,0.403887,0.750985,1.35258,1.52799,0.878738,1.36417,1.08155,1.12221,0.195318,0.671121,0.363536,0.657356,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.59809,0.86025,0.353344,1.01535,0.48999,1.14365,0.0358067,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,1.42284,1.88287,0.331322,1.73501,0.580497,1.27437,0.895708,0.46758,0.489108,0.976367,0.523103,0.637798,0.319291,0.876739,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.809881
|tfbs_overrepresentation_jaspar=MA0003.1;1.53513,MA0004.1;0.360508,MA0006.1;1.78357,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;1.80909,MA0017.1;0.233089,MA0019.1;0.603066,MA0024.1;0.737933,MA0025.1;1.01089,MA0027.1;2.42079,MA0028.1;0.625707,MA0029.1;0.716673,MA0030.1;0.723093,MA0031.1;0.688336,MA0038.1;0.496338,MA0040.1;0.79313,MA0041.1;0.291712,MA0042.1;0.279998,MA0043.1;0.875991,MA0046.1;0.816137,MA0048.1;0.236433,MA0050.1;0.396459,MA0051.1;0.504875,MA0052.1;0.801048,MA0055.1;0.866263,MA0056.1;0,MA0057.1;0.817159,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;0.446031,MA0061.1;0.504772,MA0063.1;0,MA0066.1;0.485868,MA0067.1;1.12095,MA0068.1;0.22316,MA0069.1;0.801381,MA0070.1;0.791856,MA0071.1;1.02422,MA0072.1;0.783532,MA0073.1;0.0413021,MA0074.1;1.14612,MA0076.1;1.99258,MA0077.1;0.762273,MA0078.1;0.536502,MA0081.1;0.305576,MA0083.1;0.875209,MA0084.1;1.44691,MA0087.1;0.832758,MA0088.1;4.24048,MA0089.1;0,MA0090.1;1.57793,MA0091.1;0.372635,MA0092.1;0.329444,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;1.12255,MA0101.1;0.292867,MA0103.1;0.242398,MA0105.1;0.304995,MA0106.1;1.34295,MA0107.1;0.237082,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.342068,MA0113.1;0.516916,MA0114.1;0.167085,MA0115.1;0.878749,MA0116.1;0.210297,MA0117.1;0.846964,MA0119.1;0.293392,MA0122.1;0.866511,MA0124.1;1.06819,MA0125.1;0.994853,MA0130.1;0,MA0131.1;0.598671,MA0132.1;0,MA0133.1;0,MA0135.1;2.10634,MA0136.1;0.470672,MA0139.1;0.385513,MA0140.1;0.440804,MA0141.1;0.719522,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.169559,MA0145.1;0.371997,MA0146.1;2.0328,MA0147.1;0.530496,MA0148.1;0.375491,MA0149.1;0.2978,MA0062.2;0.649383,MA0035.2;0.44524,MA0039.2;0.647421,MA0138.2;0.590987,MA0002.2;0.391079,MA0137.2;0.257017,MA0104.2;0.828906,MA0047.2;0.495607,MA0112.2;1.4636,MA0065.2;0.163769,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;1.81087,MA0155.1;0.416651,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;1.05,MA0160.1;0.378276,MA0161.1;0,MA0162.1;1.39091,MA0163.1;0.971627,MA0164.1;0.471016,MA0080.2;0.237846,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.538206,MA0102.2;1.49914,MA0258.1;0.156336,MA0259.1;0.50935,MA0442.1;0
}}

Latest revision as of 15:44, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:99950207..99950267,+p@chr10:99950207..99950267
+
Mm9::chr12:117501419..117501519,-p1@Wdr60
Mm9::chr14:57287079..57287186,+p1@Mphosph8
Mm9::chr15:8119067..8119105,+p2@2410089E03Rik
Mm9::chr16:37868651..37868819,+p@chr16:37868651..37868819
+
Mm9::chr17:49754429..49754476,+p1@Kif6
Mm9::chr18:24629345..24629423,+p1@2700062C07Rik
Mm9::chr1:93391208..93391275,+p1@Traf3ip1
Mm9::chr8:126042743..126042828,+p1@Gas8
Mm9::chr8:49075889..49075931,-p3@Wwc2


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:0015630microtubule cytoskeleton0.010513171268616
GO:0042527negative regulation of tyrosine phosphorylation of Stat6 protein0.0117498832881236
GO:0042505tyrosine phosphorylation of Stat6 protein0.0117498832881236
GO:0042525regulation of tyrosine phosphorylation of Stat6 protein0.0117498832881236
GO:0043232intracellular non-membrane-bound organelle0.0117498832881236
GO:0043228non-membrane-bound organelle0.0117498832881236
GO:0050732negative regulation of peptidyl-tyrosine phosphorylation0.0117498832881236
GO:0042532negative regulation of tyrosine phosphorylation of STAT protein0.0117498832881236
GO:0046426negative regulation of JAK-STAT cascade0.0128162988067131
GO:0042326negative regulation of phosphorylation0.0128162988067131
GO:0045936negative regulation of phosphate metabolic process0.0128162988067131
GO:0005874microtubule0.0189395092156769
GO:0005856cytoskeleton0.0205308899203803
GO:0033239negative regulation of amine metabolic process0.0205482177766548
GO:0001933negative regulation of protein amino acid phosphorylation0.0205482177766548
GO:0045763negative regulation of amino acid metabolic process0.0205482177766548
GO:0042509regulation of tyrosine phosphorylation of STAT protein0.024858259520906
GO:0051101regulation of DNA binding0.0260822551445187
GO:0007260tyrosine phosphorylation of STAT protein0.029643284328871
GO:0046425regulation of JAK-STAT cascade0.0305037018392697
GO:0051098regulation of binding0.0446512394951314
GO:0030317sperm motility0.0447465908164342
GO:0009434microtubule-based flagellum0.0468645424416261



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>


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)
MA0003.11.53513
MA0004.10.360508
MA0006.11.78357
MA0007.10.346734
MA0009.10.780842
MA0014.11.80909
MA0017.10.233089
MA0019.10.603066
MA0024.10.737933
MA0025.11.01089
MA0027.12.42079
MA0028.10.625707
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
MA0055.10.866263
MA0056.10
MA0057.10.817159
MA0058.10.273976
MA0059.10.28489
MA0060.10.446031
MA0061.10.504772
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.22316
MA0069.10.801381
MA0070.10.791856
MA0071.11.02422
MA0072.10.783532
MA0073.10.0413021
MA0074.11.14612
MA0076.11.99258
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.14.24048
MA0089.10
MA0090.11.57793
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.11.12255
MA0101.10.292867
MA0103.10.242398
MA0105.10.304995
MA0106.11.34295
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
MA0135.12.10634
MA0136.10.470672
MA0139.10.385513
MA0140.10.440804
MA0141.10.719522
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.10.371997
MA0146.12.0328
MA0147.10.530496
MA0148.10.375491
MA0149.10.2978
MA0062.20.649383
MA0035.20.44524
MA0039.20.647421
MA0138.20.590987
MA0002.20.391079
MA0137.20.257017
MA0104.20.828906
MA0047.20.495607
MA0112.21.4636
MA0065.20.163769
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.11.81087
MA0155.10.416651
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.11.05
MA0160.10.378276
MA0161.10
MA0162.11.39091
MA0163.10.971627
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.20.538206
MA0102.21.49914
MA0258.10.156336
MA0259.10.50935
MA0442.10
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