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MCL coexpression mm9:1344: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9|coexpression_dpi_cluster_scores_mean=-0.00195692749188047,0.862780770205827,0.993188310746135,0.828264188581207,0.935065443864113,0.711802108879995,0.668388811661582,-0.0386716337006754,-0.0456586762106917,-0.0326590871005845,-0.071160578422583,-0.0556302077933173,-0.071160578422583,-0.0249391361832738,-0.0503495936567577,-0.0465504060965653,-0.0327710815687665,0.0454851406965944,0.0279715065205881,0.0557245502142877,0.306400018246318,-0.0143706161624004,-0.0106840610227833,0.905313103783322,0.865105393402703,0.963446429070604,0.97217450764652,0.961180111027331,1.18184313958264,1.09288912687884,0.775270400540255,0.00603273715400182,-0.0364622536657698,0.133264869412262,0.58593001857808,0.651311530567454,0.584366912422484,0.152647439185332,0.15136067595422,0.148037625290428,0.192576160905279,0.218945080304843,0.105700342202538,0.0198874180239908,0.0114050619767391,0.0313274697058517,0.0640654921947757,0.0173825449744843,0.0591652627418288,0.0614815427705822,0.0555707004557222,-0.00666904620102662,0.024962873543109,-0.071160578422583,-0.071160578422583,0.0351606003736063,0.0267039335342788,0.0662196914192105,-0.0578241129135012,-0.018920317894687,-0.011897498913472,0.0509717556187805,0.0515253271137787,0.0175715959190667,0.0446868303378907,-0.00716263589482538,0.0106676480892483,0.0671989248363013,-0.0180204067916668,-0.0538592813675545,-0.057343580067621,0.0391553834890517,0.00806508405527982,-0.071160578422583,-0.0584666387035782,-0.023973164064523,-0.0174174320000542,-0.0157815765037913,-0.00832301192777685,-0.0024833936814071,-0.00863186316551102,-0.0194907638685017,-0.00791534415628757,0.0522608463866688,0.0253743660452182,0.00252779408731785,-0.0161263462235924,-0.0168260307410993,0.0102376772229317,0.0450645531266764,0.0573956265726578,0.763477896595157,0.702960341713023,0.544235245214099,1.03025691148164,1.01863778960198,0.642188256639721,0.045294364079877,0.038229595732811,-0.00739027775422272,0.0256398639862833,0.112921363727867,-0.071160578422583,0.0803488503454845,0.197359711324487,0.15917735624215,0.134743774209739,0.86244977632798,0.089464150091536,0.0335635422554492,0.0334666130717557,0.0374145610807085,0.0143901581703038,0.0441172792240955,0.0726554188742746,0.0826248720082776,0.501346658770744,0.0314809312948355,0.108021108587437,0.0245120030684217,0.0229576767524269,-0.0220920416267768,1.65883466506236,-0.00588994842845563,7.55734019096862e-05,1.04326369619308,0.000125282221540781,0.0199190642061909,-0.000567367687105533,0.00942059782999034,-0.071160578422583,-0.0254837579920653,-0.0329529341865135,-0.0412625282576462,-0.000284294618825917,0.0138506739589747,-0.0101239737436633,0.065899725954181,0.149034915674576,0.0952721410247554,0.0005069206891714,0.0100083747944874,-0.00142825011267021,0.0347097037830401,-0.00692961828227395,0.0305225483727607,0.00933870072251502,0.0369553934888354,-0.045213761393069,-0.030389004753071,-0.019000384947754,-0.0255915709789975,-0.0170384491047543,-0.0329014162201232,-0.000721905952172585,0.0171721063799238,0.010887899665717,0.00976420562648445,-0.00716690348141273,0.00500492530846193,-0.0080143461455668,-0.00142826710230996,-0.00755369095575957,-0.0115782008239814,-0.0193927176906383,0.00719631108078683,-0.0011886123449175,-0.00431941056298023,-0.0103558567822315,0.0240678916533782,-0.00468664736308083,0.0159462670686378,-0.00316832830610107,0.0264114315066151,0.00572105720399432,-0.041114596623572,1.33837064431342,0.839952242547658,0.0539445192403037,0.0797096160271486,0.460318723537523,0.618058180095144,0.734337734632154,0.88278262118937,0.978759563546277,1.13988977564324,0.937786318161513,1.00756357770325,0.964101543565664,0.969413003369097,1.1075059648885,1.22784713877655,0.0559226287710011,0.201962428248406,0.368095183881202,0.377865854555112,0.405365659241747,0.49365918677739,0.42544397039239,0.72840412595901,0.734387354477846,0.907581512573444,0.977275889114277,-0.0194484718507041,0.0263816900594712,-0.000236078495697604,0.165146048394239,0.137562389811058,0.214300044189751,0.236589863996264,0.542242279914913,0.466977521438842,0.490287881839177,0.654209656856819,0.684563275209206,0.84009976864348,0.86867452649268,1.10106235857514,0.412685357590065,0.013438828472679,-0.0108694481744765,0.0364705188247245,-0.000815659480644123,0.0198121793360319,0.045186889728196,0.0290679926619923,0.116240113689208,0.0959241234544603,0.027142702565626,0.256186952989281,0.278266626126276,0.344946283486442,0.0960206367929843,0.141973916413301,0.0860835148978055,0.11021019942819,0.0379400381035046,0.0102989773729602,-0.00091109587958461,0.0526976383534795,-0.051311650765577,-0.00307098031222793,0.00135765308442768,0,0.023021085806014,0.000692063839811648,0.057977508303397,0.0329691647395078,-0.0289951365208272,-0.030824431299421,0.142542803233756,-0.001926273587938,0.032987039543553,0.372417573907372,0.0621754173471995,0.111715440661963,0.131960840881393,0.179823448801499,0.0227459210645254,0.0562610269804934,0.608095080203365,0.126138509217344,0.1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sulfotransferase activity;0.0180732773037338;53315!GO:0004062;aryl sulfotransferase activity;0.0180732773037338;53315!GO:0006791;sulfur utilization;0.0180732773037338;53315!GO:0000103;sulfate assimilation;0.0180732773037338;53315!GO:0008508;bile acid:sodium symporter activity;0.0240871425889528;241877!GO:0015125;bile acid transmembrane transporter activity;0.0240871425889528;241877!GO:0006805;xenobiotic metabolic process;0.0288792426108508;622402!GO:0009410;response to xenobiotic stimulus;0.0288792426108508;622402!GO:0004033;aldo-keto reductase activity;0.0288792426108508;622402!GO:0008028;monocarboxylic acid transmembrane transporter activity;0.0288792426108508;241877!GO:0005343;organic acid:sodium symporter 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|coexpression_dpi_cluster_scores_median=0,0.556563109059282,0.669759878927785,0.532284343736144,0.62823016783933,0.452582543937245,0.60605491182465,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0851634727547557,0,0,0.892829216451161,0.723238790087583,0.760259749355759,0.750814606154272,0.738791880626707,0.802187095500956,0.784995606289508,0.629070315582619,0,0,0,0.349455204713243,0.530609921981325,0.477963154360197,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.680629060387542,0.606984040982102,0.418153668255242,0.883782295279751,0.73571492387586,0.545842792376847,0,0,0,0,0,0,0,0.13177236453178,0.138054129664767,0.0888439057459905,0.499859646562276,0.0500021512116835,0.0300545597055,0.0309221756550398,0,0,0.03048532897689,0.02414100236309,0.0743913690609267,0.24340533593997,0,0,0,0,0,1.44688725978117,0,0,0.796504389754595,0,0,0,0,0,0,0,0,0,0,0,0.0509235292940968,0.13776000505458,0.0829439327499637,0,0,0,0.0304819657131131,0,0,0,0.0109427852510773,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.05182714790443,0.676245800055318,0,0.0453470647143469,0.359087616548828,0.45382359587575,0.583572208448304,0.695640710391234,0.757825581692149,0.994150498351767,0.802775010947072,0.821438240948713,0.736045697361376,0.686742415648812,0.832448653656259,0.86334103443857,0,0.059386221283115,0.042737363188384,0.0679562066718054,0.0475727186220967,0.0788019167632026,0.139239443693993,0.245731151368341,0.369474921868177,0.398440120892743,0.814629524424844,0,0,0.0440436005947919,0.177170830919231,0.132392899141254,0.178761674734239,0.190023428853106,0.276463168739894,0.429424243352086,0.44334631835422,0.558913196676955,0.558769203992651,0.618604192867811,0.708724078070173,0.759211157255182,0.260909273858362,0,0,0,0,0,0,0,0.0317858514275138,0.024584842166072,0.0321269055488328,0.162414729120886,0.167416633131167,0.180794947602933,0,0.094310383023109,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0830839046778843,0,0.0327687501780757,0.196143772846449,0,0.0540264049509365,0.0685352329341744,0.135986473363214,0,0,0.424997439466629,0.134665885471472,0.0749443076572003,0.0596340098159245,0,0,0,0,0,0,0,0,0,0,0.0330412248477936,0.106824771371272,0.202732841389923,0,0,0,0,0,0.724322386024607,0.0369370963453219,0,0,0,0.0374755578790873,0,0,0,0,0,0.678790747906342,0,0.192500065883259,0.328240119337955,0.350770406978536,0.517327398218422,0.316920905942573,0.30808357321266,0.397882328774775,1.23864141159636,0.370436222827184,0,0,0,0,0,0,0,0,0,0,0,0.0174225465042843,0,0,0,0,0,0.024646902068351,0,0,0,0,0,0,0,0,0,0,0,0.0383547285828163,0.194642554821016,0.262529730763155,0.0421752250554017,0.0882730957176585,0,0,0,0,0,0,0,0,0,0,0,0,0.0684580848992459,0.0472542065752338,0,0.104640510677275,0.123437230911067,0.179431503765693,0.189061840188817,0.137748206855213,0.171868938041193,0.139013627015232,0.193639056320997,0.150112445102297,0.119117816449289,0.169172763866184,0.0452645736210068,0.0766073954291401,0.074930558382725,0.0694537128654003,0.128033729919821,0.0709519923534245,0.163607946001013,0.0848798800014619,0.175875065464618,0.063302443935726,0.067702448769816,0.142510765959715,0.126387342143306,0.096721241723504,0.0924644954689594,0.0594496181738161,0.074491100723522,0.187614366711608,0.141704700595215,0,0.0939925740400424,0.0921843406776149,0,0,0
|gostat_on_MCL_coexpression=GO:0017067;tyrosine-ester sulfotransferase activity;0.0180732773037338;53315!GO:0004062;aryl sulfotransferase activity;0.0180732773037338;53315!GO:0006791;sulfur utilization;0.0180732773037338;53315!GO:0000103;sulfate assimilation;0.0180732773037338;53315!GO:0008508;bile acid:sodium symporter activity;0.0240871425889528;241877!GO:0015125;bile acid transmembrane transporter activity;0.0240871425889528;241877!GO:0006805;xenobiotic metabolic process;0.0288792426108508;622402!GO:0009410;response to xenobiotic stimulus;0.0288792426108508;622402!GO:0004033;aldo-keto reductase activity;0.0288792426108508;622402!GO:0008028;monocarboxylic acid transmembrane transporter activity;0.0288792426108508;241877!GO:0005343;organic acid:sodium symporter activity;0.0311662075486136;241877!
}}

Latest revision as of 16:47, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr13:4278636..4278655,-p1@Akr1c12
Mm9::chr3:10335409..10335441,-p@chr3:10335409..10335441
-
Mm9::chr4:106987004..106987029,+p2@Yipf1
Mm9::chr5:87997915..87997933,-p1@Sult1d1
Mm9::chr5:87997938..87997949,-p5@Sult1d1
Mm9::chr7:26262616..26262621,-p3@Ceacam1


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:0017067tyrosine-ester sulfotransferase activity0.0180732773037338
GO:0004062aryl sulfotransferase activity0.0180732773037338
GO:0006791sulfur utilization0.0180732773037338
GO:0000103sulfate assimilation0.0180732773037338
GO:0008508bile acid:sodium symporter activity0.0240871425889528
GO:0015125bile acid transmembrane transporter activity0.0240871425889528
GO:0006805xenobiotic metabolic process0.0288792426108508
GO:0009410response to xenobiotic stimulus0.0288792426108508
GO:0004033aldo-keto reductase activity0.0288792426108508
GO:0008028monocarboxylic acid transmembrane transporter activity0.0288792426108508
GO:0005343organic acid:sodium symporter activity0.0311662075486136



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
epithelial cell2.65e-0725

Uber Anatomy
Ontology termp-valuen
intestine2.10e-2031
gastrointestinal system6.91e-2047
endoderm-derived structure4.42e-19118
endoderm4.42e-19118
presumptive endoderm4.42e-19118
digestive system1.28e-18116
digestive tract1.28e-18116
primitive gut1.28e-18116
subdivision of digestive tract2.93e-17114
mucosa3.21e-1115
intestinal mucosa1.17e-0913
anatomical wall1.17e-0913
wall of intestine1.17e-0913
gastrointestinal system mucosa1.17e-0913
digestive tract diverticulum1.37e-0923
sac1.37e-0923
liver8.33e-0922
epithelial sac8.33e-0922
digestive gland8.33e-0922
epithelium of foregut-midgut junction8.33e-0922
anatomical boundary8.33e-0922
hepatobiliary system8.33e-0922
foregut-midgut junction8.33e-0922
hepatic diverticulum8.33e-0922
liver primordium8.33e-0922
septum transversum8.33e-0922
liver bud8.33e-0922
exocrine gland6.23e-0825
exocrine system6.23e-0825
organ component layer1.66e-0724
abdomen element2.29e-0749
abdominal segment element2.29e-0749
abdominal segment of trunk2.29e-0749
abdomen2.29e-0749
trunk region element2.81e-0779
subdivision of trunk3.62e-0766


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)
MA0003.10.135108
MA0004.10.536396
MA0006.10.359699
MA0007.10.52077
MA0009.10.987341
MA0014.10.0315641
MA0017.10.387481
MA0019.10.800946
MA0024.10.942716
MA0025.11.22395
MA0027.12.64231
MA0028.10.370592
MA0029.10.920529
MA0030.10.927235
MA0031.12.06331
MA0038.10.686534
MA0040.11.00009
MA0041.10.457338
MA0042.11.12834
MA0043.11.08567
MA0046.17.12762
MA0048.10.161427
MA0050.10.57678
MA0051.10.695779
MA0052.11.00829
MA0055.10.465302
MA0056.10
MA0057.10.149949
MA0058.10.436487
MA0059.10.449345
MA0060.10.275911
MA0061.11.49922
MA0063.10
MA0066.10.675169
MA0067.11.33603
MA0068.10.153907
MA0069.11.00864
MA0070.10.998765
MA0071.10.575909
MA0072.10.990133
MA0073.10.000157319
MA0074.10.638014
MA0076.11.04996
MA0077.10.968053
MA0078.10.729877
MA0081.10.473489
MA0083.11.08487
MA0084.11.66561
MA0087.11.04109
MA0088.10.111145
MA0089.10
MA0090.10.500693
MA0091.10.55008
MA0092.10.501022
MA0093.10.988233
MA0095.10
MA0098.10
MA0100.10.626021
MA0101.10.458688
MA0103.10.398766
MA0105.10.57901
MA0106.10.737893
MA0107.11.0169
MA0108.20.824407
MA0109.10
MA0111.10.515457
MA0113.10.708789
MA0114.10.822296
MA0115.11.08851
MA0116.10.359483
MA0117.11.05576
MA0119.10.459301
MA0122.11.07591
MA0124.11.28237
MA0125.11.20757
MA0130.10
MA0131.10.796279
MA0132.10
MA0133.10
MA0135.11.1226
MA0136.10.658622
MA0139.10.243463
MA0140.10.625902
MA0141.10.419361
MA0142.10.876028
MA0143.10.725672
MA0144.10.829535
MA0145.10.119202
MA0146.10.0392287
MA0147.10.320675
MA0148.11.3627
MA0149.10.464445
MA0062.21.11803
MA0035.20.630778
MA0039.20.0271858
MA0138.20.788113
MA0002.20.246463
MA0137.20.416331
MA0104.20.261255
MA0047.20.685741
MA0112.20.76177
MA0065.20.380324
MA0150.10.520653
MA0151.10
MA0152.10.685852
MA0153.17.72242
MA0154.12.13869
MA0155.10.132921
MA0156.11.04798
MA0157.11.96555
MA0158.10
MA0159.10.331229
MA0160.10.556423
MA0161.10
MA0162.10.0465447
MA0163.10.0423021
MA0164.11.58466
MA0080.21.01893
MA0018.20.669032
MA0099.20.781628
MA0079.20.00464563
MA0102.21.7182
MA0258.10.790457
MA0259.10.309517
MA0442.10
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