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MCL coexpression mm9:237: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.064513712786576,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.127160916153114,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.280520095438253,0.248923243170183,0.213207239280454,0,0,0,0,0,0,0,0.0428469550828748,0.0549981337564001,0.0829019901297716,0.698182872241212,0.634782289083664,0.1155407506158,0.0761636383140293,0,0.633819428689635,0.762311281845234,0.808993449647429,0.201976684819149,0.312092266416601,0.310018887324488,0.704961407696724,0.327466262382121,0.655870060943199,1.03875450584151,0.938923349528507,0.620010078706042,0.0317017435824471,0.0316393102377815,0,0,0,0,0,0,0.0570741246689917,0,0,0,0.0825039833843327,0,0,0,0,0,0,0,0,0,0.181973851122548,0.206537407802916,0.0482563960342222,0.162016838976164,0.131222718281153,0,0,0,0,0,0,0,0,0.20018311764962,0.211745123527753,0,0,0,0,0.530628115692513,0.28216905172576,0.0973644655708927,0.360449051869648,0.494921679325433,0.457895878829497,0.498284960627694,0.0805105854221362,0,0,0,0.199811820766602,0.0449352723065536,0.160575934061045,0.32816608099324,0.148670198047907,0.19733841162344,0.138241702589118,0.308524606664259,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.265091482557376,0.180275890794066,0,0,0.119129528926274,0.165681471080581,0,0,0,0,0,0,0,0,0,0,0,0,0,0.046982063026719,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.580786967165111,0.789312613199534,0,0,0,0,0.0423637962789889,0,0,0,0,0,0,0.215543090236368,0,0.132301710080237,0.217891157636379,0,0,0.0943944778653996,0,0,0,0,0,0,0,0,0,0,0,0.133577925442038,0.0999282245587464,0.0843392403965415,0,0.276885342157295,0.348811349043212,0.160984768121272,0,0,0,0,0,0,0,0,0,0.8290229245578,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0769189504490526,0.0811390825906054,0.0265240061007451,0,0,0,0,0,0,0,0.0403878614760544,0,0,0,0,0,0,0,0,0,0,0,0.718337117721396,0.729825276924082,0.753441941848287,0.671548361339786,0.485046405834616,0.637219639951065,0.3950474302364,0.515371810707216,0.449103283876296,0.487285649470539,0.397952873545823,0.0729127179624205,0.0684580848992459,0.0945084131504676,0.0826465040380816,0.0366471485294105,0.0871588832444397,0.081359932135904,0,0.0978461107777356,0.098117166361508,0.0750453505157095,0.107523539997041,0.0990244263857601,0.0818594587340404,0,0.0905291472420136,0.0766073954291401,0.074930558382725,0.158843797677303,0.128033729919821,0.209175722594613,0.092873634605593,0.0848798800014619,0.0973182018478838,0.0830715518132696,0.104181599639904,0.18359421108913,0.148421355017489,0,0.0924644954689594,0.144268359582519,0.148982201447044,0.0625582350728301,0.0766064454112358,0.0968441960560167,0,0.0659760689229884,0.0760168881589905,0.0865703124974023,0.0315086933622212
|gostat_on_MCL_coexpression=GO:0002089;lens morphogenesis in camera-type eye;0.019814094486751;110380!GO:0008057;eye pigment granule organization and biogenesis;0.019814094486751;110380!GO:0043482;cellular pigment accumulation;0.019814094486751;110380!GO:0043476;pigment accumulation;0.0297162565983497;110380!GO:0032401;establishment of melanosome localization;0.0319758323443162;110380!GO:0051905;establishment of pigment granule localization;0.0319758323443162;110380!GO:0032438;melanosome organization and biogenesis;0.0319758323443162;110380!GO:0032400;melanosome localization;0.0319758323443162;110380!GO:0048753;pigment granule organization and biogenesis;0.0319758323443162;110380!GO:0005874;microtubule;0.0319758323443162;17755,110380!GO:0051875;pigment granule localization;0.0319758323443162;110380!GO:0005519;cytoskeletal regulatory protein binding;0.0319758323443162;17755!GO:0045176;apical protein localization;0.0319758323443162;110380!GO:0001578;microtubule bundle formation;0.0333923463558605;17755!GO:0033059;cellular pigmentation;0.0333923463558605;110380!GO:0008105;asymmetric protein localization;0.0333923463558605;110380!GO:0051650;establishment of vesicle localization;0.03435743536712;110380!GO:0030864;cortical actin cytoskeleton;0.03435743536712;110380!GO:0002088;lens development in camera-type eye;0.03435743536712;110380!GO:0051648;vesicle localization;0.0350557751848691;110380!GO:0015630;microtubule cytoskeleton;0.0350557751848691;17755,110380!GO:0008013;beta-catenin binding;0.0350557751848691;110380!GO:0006305;DNA alkylation;0.0370660387790414;12805!GO:0006306;DNA methylation;0.0370660387790414;12805!GO:0030863;cortical cytoskeleton;0.038106277368623;110380!GO:0008092;cytoskeletal protein binding;0.038106277368623;17755,110380!GO:0048593;camera-type eye morphogenesis;0.038106277368623;110380!GO:0006304;DNA modification;0.038106277368623;12805!GO:0051656;establishment of organelle localization;0.0429031570624528;110380!GO:0004364;glutathione transferase activity;0.0454079412165252;14866!GO:0051015;actin filament binding;0.0458462077462921;110380!GO:0005913;cell-cell adherens junction;0.0480988312389123;110380!GO:0051640;organelle localization;0.0484272292778037;110380!GO:0044448;cell cortex part;0.0487357391460906;110380!
|gostat_on_MCL_coexpression=GO:0002089;lens morphogenesis in camera-type eye;0.019814094486751;110380!GO:0008057;eye pigment granule organization and biogenesis;0.019814094486751;110380!GO:0043482;cellular pigment accumulation;0.019814094486751;110380!GO:0043476;pigment accumulation;0.0297162565983497;110380!GO:0032401;establishment of melanosome localization;0.0319758323443162;110380!GO:0051905;establishment of pigment granule localization;0.0319758323443162;110380!GO:0032438;melanosome organization and biogenesis;0.0319758323443162;110380!GO:0032400;melanosome localization;0.0319758323443162;110380!GO:0048753;pigment granule organization and biogenesis;0.0319758323443162;110380!GO:0005874;microtubule;0.0319758323443162;17755,110380!GO:0051875;pigment granule localization;0.0319758323443162;110380!GO:0005519;cytoskeletal regulatory protein binding;0.0319758323443162;17755!GO:0045176;apical protein localization;0.0319758323443162;110380!GO:0001578;microtubule bundle formation;0.0333923463558605;17755!GO:0033059;cellular pigmentation;0.0333923463558605;110380!GO:0008105;asymmetric protein localization;0.0333923463558605;110380!GO:0051650;establishment of vesicle localization;0.03435743536712;110380!GO:0030864;cortical actin cytoskeleton;0.03435743536712;110380!GO:0002088;lens development in camera-type eye;0.03435743536712;110380!GO:0051648;vesicle localization;0.0350557751848691;110380!GO:0015630;microtubule cytoskeleton;0.0350557751848691;17755,110380!GO:0008013;beta-catenin binding;0.0350557751848691;110380!GO:0006305;DNA alkylation;0.0370660387790414;12805!GO:0006306;DNA methylation;0.0370660387790414;12805!GO:0030863;cortical cytoskeleton;0.038106277368623;110380!GO:0008092;cytoskeletal protein binding;0.038106277368623;17755,110380!GO:0048593;camera-type eye morphogenesis;0.038106277368623;110380!GO:0006304;DNA modification;0.038106277368623;12805!GO:0051656;establishment of organelle localization;0.0429031570624528;110380!GO:0004364;glutathione transferase activity;0.0454079412165252;14866!GO:0051015;actin filament binding;0.0458462077462921;110380!GO:0005913;cell-cell adherens junction;0.0480988312389123;110380!GO:0051640;organelle localization;0.0484272292778037;110380!GO:0044448;cell cortex part;0.0487357391460906;110380!
}}
}}

Revision as of 12:38, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:100192609..100192628,-p@chr13:100192609..100192628
-
Mm9::chr14:68704695..68704710,+p@chr14:68704695..68704710
+
Mm9::chr14:68704765..68704777,+p@chr14:68704765..68704777
+
Mm9::chr14:68704851..68704867,-p@chr14:68704851..68704867
-
Mm9::chr14:68705393..68705429,-p@chr14:68705393..68705429
-
Mm9::chr14:68738245..68738248,-p@chr14:68738245..68738248
-
Mm9::chr14:68738345..68738368,-p@chr14:68738345..68738368
-
Mm9::chr14:68738380..68738464,+p@chr14:68738380..68738464
+
Mm9::chr14:68738477..68738488,-p@chr14:68738477..68738488
-
Mm9::chr14:68738545..68738556,-p@chr14:68738545..68738556
-
Mm9::chr14:68738598..68738612,-p@chr14:68738598..68738612
-
Mm9::chr14:68738682..68738750,+p@chr14:68738682..68738750
+
Mm9::chr14:68738766..68738784,-p@chr14:68738766..68738784
-
Mm9::chr14:68738820..68738866,-p@chr14:68738820..68738866
-
Mm9::chr14:68738872..68738899,-p@chr14:68738872..68738899
-
Mm9::chr14:68738878..68738972,+p@chr14:68738878..68738972
+
Mm9::chr14:68738934..68738945,-p@chr14:68738934..68738945
-
Mm9::chr14:68738946..68738957,-p@chr14:68738946..68738957
-
Mm9::chr14:68738978..68739054,+p@chr14:68738978..68739054
+
Mm9::chr14:68739003..68739017,-p@chr14:68739003..68739017
-
Mm9::chr14:68739030..68739042,-p@chr14:68739030..68739042
-
Mm9::chr14:68739123..68739132,-p@chr14:68739123..68739132
-
Mm9::chr14:68739138..68739147,-p@chr14:68739138..68739147
-
Mm9::chr14:68739201..68739215,-p@chr14:68739201..68739215
-
Mm9::chr14:68739376..68739391,-p@chr14:68739376..68739391
-
Mm9::chr14:68739418..68739430,-p@chr14:68739418..68739430
-
Mm9::chr14:68740943..68740970,-p@chr14:68740943..68740970
-
Mm9::chr15:91991841..91991862,+p11@Cntn1
Mm9::chr15:91991895..91991913,+p13@Cntn1
Mm9::chr1:134463580..134463593,-p@chr1:134463580..134463593
-
Mm9::chr2:66279206..66279219,-p3@Scn1a
Mm9::chr3:107699183..107699232,+p4@Gstm5
Mm9::chr6:107479790..107479801,+p2@Lrrn1
Mm9::chr6:30754819..30754824,+p16@uc009bfw.1
Mm9::chrX:117403928..117403942,+p1@Pcdh11x
Mm9::chrX:149078407..149078424,-p10@Shroom2


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:0002089lens morphogenesis in camera-type eye0.019814094486751
GO:0008057eye pigment granule organization and biogenesis0.019814094486751
GO:0043482cellular pigment accumulation0.019814094486751
GO:0043476pigment accumulation0.0297162565983497
GO:0032401establishment of melanosome localization0.0319758323443162
GO:0051905establishment of pigment granule localization0.0319758323443162
GO:0032438melanosome organization and biogenesis0.0319758323443162
GO:0032400melanosome localization0.0319758323443162
GO:0048753pigment granule organization and biogenesis0.0319758323443162
GO:0005874microtubule0.0319758323443162
GO:0051875pigment granule localization0.0319758323443162
GO:0005519cytoskeletal regulatory protein binding0.0319758323443162
GO:0045176apical protein localization0.0319758323443162
GO:0001578microtubule bundle formation0.0333923463558605
GO:0033059cellular pigmentation0.0333923463558605
GO:0008105asymmetric protein localization0.0333923463558605
GO:0051650establishment of vesicle localization0.03435743536712
GO:0030864cortical actin cytoskeleton0.03435743536712
GO:0002088lens development in camera-type eye0.03435743536712
GO:0051648vesicle localization0.0350557751848691
GO:0015630microtubule cytoskeleton0.0350557751848691
GO:0008013beta-catenin binding0.0350557751848691
GO:0006305DNA alkylation0.0370660387790414
GO:0006306DNA methylation0.0370660387790414
GO:0030863cortical cytoskeleton0.038106277368623
GO:0008092cytoskeletal protein binding0.038106277368623
GO:0048593camera-type eye morphogenesis0.038106277368623
GO:0006304DNA modification0.038106277368623
GO:0051656establishment of organelle localization0.0429031570624528
GO:0004364glutathione transferase activity0.0454079412165252
GO:0051015actin filament binding0.0458462077462921
GO:0005913cell-cell adherens junction0.0480988312389123
GO:0051640organelle localization0.0484272292778037
GO:0044448cell cortex part0.0487357391460906



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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)

{{{tfbs_overrepresentation_jaspar}}}

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