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MCL coexpression mm9:685: Difference between revisions

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{{MCL_coexpression_mm9
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membrane;0.000345601928474774;56535,19299!GO:0005778;peroxisomal membrane;0.000345601928474774;56535,19299!GO:0044439;peroxisomal part;0.000345601928474774;56535,19299!GO:0044438;microbody part;0.000345601928474774;56535,19299!GO:0060009;Sertoli cell development;0.00633946670214681;15488!GO:0060008;Sertoli cell differentiation;0.0110925471601167;15488!GO:0005779;integral to peroxisomal membrane;0.0158399854089115;56535!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.0158399854089115;15488!GO:0043231;intracellular membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0043227;membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0005498;sterol carrier activity;0.0158399854089115;15488!GO:0031231;intrinsic to peroxisomal membrane;0.0158399854089115;56535!GO:0000038;very-long-chain fatty acid metabolic process;0.0177383537688552;15488!GO:0043229;intracellular 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|gostat_on_MCL_coexpression=GO:0042579;microbody;5.06892505140933e-07;15488,59038,56535,19299!GO:0005777;peroxisome;5.06892505140933e-07;15488,59038,56535,19299!GO:0031903;microbody membrane;0.000345601928474774;56535,19299!GO:0005778;peroxisomal membrane;0.000345601928474774;56535,19299!GO:0044439;peroxisomal part;0.000345601928474774;56535,19299!GO:0044438;microbody part;0.000345601928474774;56535,19299!GO:0060009;Sertoli cell development;0.00633946670214681;15488!GO:0060008;Sertoli cell differentiation;0.0110925471601167;15488!GO:0005779;integral to peroxisomal membrane;0.0158399854089115;56535!GO:0003857;3-hydroxyacyl-CoA dehydrogenase activity;0.0158399854089115;15488!GO:0043231;intracellular membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0043227;membrane-bound organelle;0.0158399854089115;76491,15488,59038,56535,26466,19299!GO:0005498;sterol carrier activity;0.0158399854089115;15488!GO:0031231;intrinsic to peroxisomal membrane;0.0158399854089115;56535!GO:0000038;very-long-chain fatty acid metabolic process;0.0177383537688552;15488!GO:0043229;intracellular organelle;0.0259288222538381;76491,15488,59038,56535,26466,19299!GO:0043226;organelle;0.0259288222538381;76491,15488,59038,56535,26466,19299!GO:0006635;fatty acid beta-oxidation;0.031996890041192;15488!GO:0032934;sterol binding;0.0326401294846484;15488!GO:0008584;male gonad development;0.037637252877947;15488!GO:0019395;fatty acid oxidation;0.0421532680548443;15488!GO:0007031;peroxisome organization and biogenesis;0.0442427498574792;56535!GO:0046546;development of primary male sexual characteristics;0.0442427498574792;15488!GO:0046661;male sex differentiation;0.047837920275482;15488!GO:0044444;cytoplasmic part;0.047837920275482;15488,59038,56535,19299!GO:0005737;cytoplasm;0.0480276401506857;76491,15488,59038,56535,19299!GO:0044424;intracellular part;0.0480276401506857;76491,15488,59038,56535,26466,19299!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000160!6.73e-10!31;UBERON:0002365!2.20e-09!25;UBERON:0002330!2.20e-09!25;UBERON:0009854!1.71e-08!23;UBERON:0009856!1.71e-08!23;UBERON:0005177!3.40e-08!79;UBERON:0004119!4.25e-08!118;UBERON:0000925!4.25e-08!118;UBERON:0006595!4.25e-08!118;UBERON:0002107!5.01e-08!22;UBERON:0007499!5.01e-08!22;UBERON:0006925!5.01e-08!22;UBERON:0009497!5.01e-08!22;UBERON:0000015!5.01e-08!22;UBERON:0002423!5.01e-08!22;UBERON:0006235!5.01e-08!22;UBERON:0008835!5.01e-08!22;UBERON:0003894!5.01e-08!22;UBERON:0004161!5.01e-08!22;UBERON:0008836!5.01e-08!22;UBERON:0007023!6.30e-08!51;UBERON:0001007!7.04e-08!116;UBERON:0001555!7.04e-08!116;UBERON:0007026!7.04e-08!116;UBERON:0005409!1.25e-07!47;UBERON:0002100!1.44e-07!90;UBERON:0000344!1.79e-07!15;UBERON:0004921!3.35e-07!114
|tfbs_overrepresentation_for_novel_motifs=0.321524,0.178895,0.297937,0.360062,0.200163,0.373426,0.458558,0.785038,0.131493,0.771958,0.417132,0.447169,0.393382,1.18563,0.214197,0,0.656089,0.19356,0.364803,0.0560853,0.26524,0.336916,1.18379,1.094,0.304728,1.24179,0.709649,1.01819,1.93553,0.572447,0.379806,0.754912,0.191698,0.31333,0.214608,0.102262,0.184038,0.443753,0.166348,0.442131,0.196807,0.38461,0.130272,0.215898,0.249283,0.349801,0.578773,0.407653,0.0244624,0.241306,0.639101,0.522137,0.259389,0.894161,0.911367,0.47699,0.249055,0.435119,0.101408,0.47505,0.735292,0.531188,0.433822,0.628155,0.487593,0.667546,1.04613,1.3932,0.730718,1.24673,1.40499,0.128829,2.43558,0.944464,1.09617,0.300089,0.313198,0.567793,0.718494,0.268962,0.129727,0.673009,0.529804,0.119727,0.830765,0.81514,0.357945,0.572901,2.4344,1.55487,1.11522,0.835661,0.767462,0.205117,0.950022,0.149272,0.122617,0.770215,0.57902,0.50528,0.184103,0.754637,0.87698,0.639679,0.638654,0.3842,0.696857,0.403887,2.11468,0.266818,0.845852,0.878738,0.743427,0.421988,1.12221,0.5687,0.409202,0.363536,0.657356,0.181004,0.949798,0.607824,0.498153,0.566919,1.17594,0.722111,0.466292,0.760818,1.04463,0.59809,0.86025,0.353344,1.01535,0.48999,1.14365,0.0358067,0.329172,0.385921,1.09487,1.92247,1.5231,1.0508,0.509663,0.765172,0.632358,0.385031,0.581788,1.88287,0.331322,0.58382,0.275954,7.61624,0.895708,0.153911,1.22617,0.976367,0.523103,0.224422,0.319291,1.57707,1.1043,0.829923,0.722546,0.313083,0.629147,0.482049,0.18312,0.445669,0.809881
|tfbs_overrepresentation_jaspar=MA0003.1;0.958381,MA0004.1;0.360508,MA0006.1;1.13936,MA0007.1;0.346734,MA0009.1;0.780842,MA0014.1;0.544988,MA0017.1;0.658116,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;0.0139872,MA0056.1;0,MA0057.1;0.216209,MA0058.1;0.273976,MA0059.1;0.28489,MA0060.1;0.8754,MA0061.1;0.973999,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;0.395679,MA0072.1;0.783532,MA0073.1;0.00409435,MA0074.1;0.451832,MA0076.1;0.696577,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;1.39028,MA0089.1;0,MA0090.1;0.329158,MA0091.1;0.372635,MA0092.1;0.329444,MA0093.1;0.226349,MA0095.1;0,MA0098.1;0,MA0100.1;0.440912,MA0101.1;0.795627,MA0103.1;0.67982,MA0105.1;1.0562,MA0106.1;0.543967,MA0107.1;0.66744,MA0108.2;0.625209,MA0109.1;0,MA0111.1;0.90605,MA0113.1;0.516916,MA0114.1;0.500166,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;1.45836,MA0132.1;0,MA0133.1;0,MA0135.1;0.911905,MA0136.1;0.470672,MA0139.1;1.83412,MA0140.1;0.440804,MA0141.1;0.259554,MA0142.1;0.674191,MA0143.1;0.53259,MA0144.1;0.169559,MA0145.1;0.163161,MA0146.1;1.25057,MA0147.1;0.530496,MA0148.1;0.375491,MA0149.1;0.2978,MA0062.2;0.314778,MA0035.2;0.44524,MA0039.2;0.468563,MA0138.2;0.590987,MA0002.2;0.781868,MA0137.2;0.257017,MA0104.2;0.828906,MA0047.2;0.495607,MA0112.2;0.371983,MA0065.2;0.163769,MA0150.1;0.346631,MA0151.1;0,MA0152.1;0.495709,MA0153.1;0.92832,MA0154.1;0.501928,MA0155.1;0.732931,MA0156.1;0.248865,MA0157.1;0.642984,MA0158.1;0,MA0159.1;0.187774,MA0160.1;0.378276,MA0161.1;0,MA0162.1;1.0367,MA0163.1;0.121321,MA0164.1;0.471016,MA0080.2;0.237846,MA0018.2;0.480226,MA0099.2;0.584892,MA0079.2;0.340295,MA0102.2;1.49914,MA0258.1;0.156336,MA0259.1;0.981631,MA0442.1;0
}}

Latest revision as of 15:43, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:13272805..13272867,-p1@Pex3
Mm9::chr18:50287923..50287987,+p2@Hsd17b4
Mm9::chr2:154429394..154429429,-p1@Pxmp4
Mm9::chr3:121517837..121517869,-p6@Abcd3
Mm9::chr3:121518055..121518071,-p2@Abcd3
Mm9::chr3:121518078..121518127,-p1@Abcd3
Mm9::chr3:121518333..121518424,-p3@Abcd3
Mm9::chr5:3596306..3596393,+p1@Pex1
Mm9::chr9:106350960..106350986,+p2@Abhd14b
Mm9::chrX:125082958..125083011,-p@chrX:125082958..125083011
-


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:0042579microbody5.06892505140933e-07
GO:0005777peroxisome5.06892505140933e-07
GO:0031903microbody membrane0.000345601928474774
GO:0005778peroxisomal membrane0.000345601928474774
GO:0044439peroxisomal part0.000345601928474774
GO:0044438microbody part0.000345601928474774
GO:0060009Sertoli cell development0.00633946670214681
GO:0060008Sertoli cell differentiation0.0110925471601167
GO:0005779integral to peroxisomal membrane0.0158399854089115
GO:00038573-hydroxyacyl-CoA dehydrogenase activity0.0158399854089115
GO:0043231intracellular membrane-bound organelle0.0158399854089115
GO:0043227membrane-bound organelle0.0158399854089115
GO:0005498sterol carrier activity0.0158399854089115
GO:0031231intrinsic to peroxisomal membrane0.0158399854089115
GO:0000038very-long-chain fatty acid metabolic process0.0177383537688552
GO:0043229intracellular organelle0.0259288222538381
GO:0043226organelle0.0259288222538381
GO:0006635fatty acid beta-oxidation0.031996890041192
GO:0032934sterol binding0.0326401294846484
GO:0008584male gonad development0.037637252877947
GO:0019395fatty acid oxidation0.0421532680548443
GO:0007031peroxisome organization and biogenesis0.0442427498574792
GO:0046546development of primary male sexual characteristics0.0442427498574792
GO:0046661male sex differentiation0.047837920275482
GO:0044444cytoplasmic part0.047837920275482
GO:0005737cytoplasm0.0480276401506857
GO:0044424intracellular part0.0480276401506857



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
intestine6.73e-1031
exocrine gland2.20e-0925
exocrine system2.20e-0925
digestive tract diverticulum1.71e-0823
sac1.71e-0823
trunk region element3.40e-0879
endoderm-derived structure4.25e-08118
endoderm4.25e-08118
presumptive endoderm4.25e-08118
liver5.01e-0822
epithelial sac5.01e-0822
digestive gland5.01e-0822
epithelium of foregut-midgut junction5.01e-0822
anatomical boundary5.01e-0822
hepatobiliary system5.01e-0822
foregut-midgut junction5.01e-0822
hepatic diverticulum5.01e-0822
liver primordium5.01e-0822
septum transversum5.01e-0822
liver bud5.01e-0822
adult organism6.30e-0851
digestive system7.04e-08116
digestive tract7.04e-08116
primitive gut7.04e-08116
gastrointestinal system1.25e-0747
trunk1.44e-0790
mucosa1.79e-0715
subdivision of digestive tract3.35e-07114


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)
MA0003.10.958381
MA0004.10.360508
MA0006.11.13936
MA0007.10.346734
MA0009.10.780842
MA0014.10.544988
MA0017.10.658116
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
MA0055.10.0139872
MA0056.10
MA0057.10.216209
MA0058.10.273976
MA0059.10.28489
MA0060.10.8754
MA0061.10.973999
MA0063.10
MA0066.10.485868
MA0067.11.12095
MA0068.10.22316
MA0069.10.801381
MA0070.10.791856
MA0071.10.395679
MA0072.10.783532
MA0073.10.00409435
MA0074.10.451832
MA0076.10.696577
MA0077.10.762273
MA0078.10.536502
MA0081.10.305576
MA0083.10.875209
MA0084.11.44691
MA0087.10.832758
MA0088.11.39028
MA0089.10
MA0090.10.329158
MA0091.10.372635
MA0092.10.329444
MA0093.10.226349
MA0095.10
MA0098.10
MA0100.10.440912
MA0101.10.795627
MA0103.10.67982
MA0105.11.0562
MA0106.10.543967
MA0107.10.66744
MA0108.20.625209
MA0109.10
MA0111.10.90605
MA0113.10.516916
MA0114.10.500166
MA0115.10.878749
MA0116.10.210297
MA0117.10.846964
MA0119.10.293392
MA0122.10.866511
MA0124.11.06819
MA0125.10.994853
MA0130.10
MA0131.11.45836
MA0132.10
MA0133.10
MA0135.10.911905
MA0136.10.470672
MA0139.11.83412
MA0140.10.440804
MA0141.10.259554
MA0142.10.674191
MA0143.10.53259
MA0144.10.169559
MA0145.10.163161
MA0146.11.25057
MA0147.10.530496
MA0148.10.375491
MA0149.10.2978
MA0062.20.314778
MA0035.20.44524
MA0039.20.468563
MA0138.20.590987
MA0002.20.781868
MA0137.20.257017
MA0104.20.828906
MA0047.20.495607
MA0112.20.371983
MA0065.20.163769
MA0150.10.346631
MA0151.10
MA0152.10.495709
MA0153.10.92832
MA0154.10.501928
MA0155.10.732931
MA0156.10.248865
MA0157.10.642984
MA0158.10
MA0159.10.187774
MA0160.10.378276
MA0161.10
MA0162.11.0367
MA0163.10.121321
MA0164.10.471016
MA0080.20.237846
MA0018.20.480226
MA0099.20.584892
MA0079.20.340295
MA0102.21.49914
MA0258.10.156336
MA0259.10.981631
MA0442.10
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