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MCL coexpression mm9:803: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.206002197103771,0.313441563167376,0.213207239280454,0,0,0,0,0,0,0,0,0.0549981337564001,0,0.808033213770281,0.751143509015826,0.0501827898833331,0.0397493170902889,0,0.505464404962115,0.445233997553937,0.538787879174733,0.312830909778928,0.238523100298268,0.182104477852721,0.264238928079949,0.327466262382121,0.20714756397787,0.838381293148007,0.733479914452398,0.326007286088902,0,0,0,0,0,0,0,0,0,0,0,0,0.107781924973909,0,0,0,0,0,0,0,0,0,0,0,0.0189529039477871,0,0,0,0,0,0,0,0,0,0,0.111524892460631,0.0825867363219064,0,0,0,0,0.242778187668423,0.163608743054207,0.2440112939716,0.345720682701099,0.403856780142017,0.457895878829497,0.329537978565126,0,0,0,0.0813890598230188,0,0,0,0.114414017937594,0.104536955558926,0.0990682757404326,0.0388988969149198,0.0999233952154288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.31206088192539,0.235612340118493,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.358773048807313,0.260186342962283,0,0,0,0,0.013558116608287,0,0,0,0,0,0,0.41607548758856,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0661577744756082,0.0442629381798212,0,0,0,0,0,0,0,0,0,0.39504709930654,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.328278395983124,0.453517235932598,0.58709079061676,0.343009031749163,0.485046405834616,0.514040340140897,0.568212287967179,0.447357266760456,0.372806586713801,0.407098602473158,0,0,0,0.0945084131504676,0.0826465040380816,0.073294297058821,0.0871588832444397,0.081359932135904,0.120876255993453,0.0978461107777356,0.098117166361508,0.0750453505157095,0.107523539997041,0.0763037466917402,0.0690411384905589,0,0.0905291472420136,0.0766073954291401,0,0.0876743217276124,0.128033729919821,0,0,0.0589368614163519,0.0390607415003592,0.0678996586311492,0.0729583017401753,0.101427320830301,0.148421355017489,0,0.0924644954689594,0.0408018333703219,0,0.0625582350728301,0.0766064454112358,0.0968441960560167,0.091291089277545,0.0845301845292944,0.0760168881589905,0,0
|gostat_on_MCL_coexpression=GO:0045177;apical part of cell;0.00587300717690243;110380,93835!GO:0002089;lens morphogenesis in camera-type eye;0.00587300717690243;110380!GO:0008057;eye pigment granule organization and biogenesis;0.00587300717690243;110380!GO:0043482;cellular pigment accumulation;0.00587300717690243;110380!GO:0031201;SNARE complex;0.00587300717690243;12889!GO:0043476;pigment accumulation;0.00978754086146336;110380!GO:0032401;establishment of melanosome localization;0.0131874787814422;110380!GO:0051905;establishment of pigment granule localization;0.0131874787814422;110380!GO:0032438;melanosome organization and biogenesis;0.0131874787814422;110380!GO:0032400;melanosome localization;0.0131874787814422;110380!GO:0048753;pigment granule organization and biogenesis;0.0131874787814422;110380!GO:0046903;secretion;0.0131874787814422;93835,12889!GO:0051875;pigment granule localization;0.0135475251447114;110380!GO:0045176;apical protein localization;0.0146752793641013;110380!GO:0033059;cellular pigmentation;0.016002817788394;110380!GO:0008105;asymmetric protein localization;0.016002817788394;110380!GO:0016079;synaptic vesicle exocytosis;0.016002817788394;12889!GO:0051650;establishment of vesicle localization;0.016002817788394;110380!GO:0030864;cortical actin cytoskeleton;0.016002817788394;110380!GO:0002088;lens development in camera-type eye;0.016002817788394;110380!GO:0019905;syntaxin binding;0.016002817788394;12889!GO:0051648;vesicle localization;0.016002817788394;110380!GO:0008013;beta-catenin binding;0.0165812670838333;110380!GO:0007588;excretion;0.0183320410774228;93835!GO:0000149;SNARE binding;0.0187704671304693;12889!GO:0030863;cortical cytoskeleton;0.0191749827690667;110380!GO:0048593;camera-type eye morphogenesis;0.0195493558366158;110380!GO:0005326;neurotransmitter transporter activity;0.0209422952308881;12889!GO:0051656;establishment of organelle localization;0.0212294093381044;110380!GO:0030073;insulin secretion;0.02174760103004;12889!GO:0048489;synaptic vesicle transport;0.02174760103004;12889!GO:0051015;actin filament binding;0.0219821809304354;110380!GO:0005913;cell-cell adherens junction;0.0227888411667048;110380!GO:0051640;organelle localization;0.0227888411667048;110380!GO:0044448;cell cortex part;0.0227888411667048;110380!GO:0030072;peptide hormone secretion;0.0227888411667048;12889!GO:0002790;peptide secretion;0.0229629289976598;12889!GO:0051234;establishment of localization;0.026175522874545;110380,93835,12889!GO:0015833;peptide transport;0.0277329542032488;12889!GO:0008104;protein localization;0.0277329542032488;110380,93835!GO:0051649;establishment of cellular localization;0.0277329542032488;110380,12889!GO:0051641;cellular localization;0.0277329542032488;110380,12889!GO:0046879;hormone secretion;0.0277329542032488;12889!GO:0033036;macromolecule localization;0.0277329542032488;110380,93835!GO:0048592;eye morphogenesis;0.0279632143724156;110380!GO:0005938;cell cortex;0.0286644083003235;110380!GO:0006836;neurotransmitter transport;0.0286644083003235;12889!GO:0031072;heat shock protein binding;0.0286644083003235;72685!GO:0051179;localization;0.0286644083003235;110380,93835,12889!GO:0016324;apical plasma membrane;0.0286644083003235;110380!GO:0007269;neurotransmitter secretion;0.0292445867094192;12889!GO:0005912;adherens junction;0.0342779525188808;110380!GO:0045055;regulated secretory pathway;0.0352764884670792;12889!GO:0005923;tight junction;0.0378504666385024;110380!GO:0043010;camera-type eye development;0.0396075725350841;110380!GO:0043583;ear development;0.0396075725350841;110380!GO:0006887;exocytosis;0.0420607361536764;12889!GO:0004725;protein tyrosine phosphatase activity;0.0420607361536764;72685!GO:0003001;generation of a signal involved in cell-cell signaling;0.0420607361536764;12889!GO:0043296;apical junction complex;0.0420607361536764;110380!GO:0001505;regulation of neurotransmitter levels;0.0420607361536764;12889!GO:0016327;apicolateral plasma membrane;0.0423158831989473;110380!GO:0001654;eye development;0.0480668038902779;110380!
|gostat_on_MCL_coexpression=GO:0045177;apical part of cell;0.00587300717690243;110380,93835!GO:0002089;lens morphogenesis in camera-type eye;0.00587300717690243;110380!GO:0008057;eye pigment granule organization and biogenesis;0.00587300717690243;110380!GO:0043482;cellular pigment accumulation;0.00587300717690243;110380!GO:0031201;SNARE complex;0.00587300717690243;12889!GO:0043476;pigment accumulation;0.00978754086146336;110380!GO:0032401;establishment of melanosome localization;0.0131874787814422;110380!GO:0051905;establishment of pigment granule localization;0.0131874787814422;110380!GO:0032438;melanosome organization and biogenesis;0.0131874787814422;110380!GO:0032400;melanosome localization;0.0131874787814422;110380!GO:0048753;pigment granule organization and biogenesis;0.0131874787814422;110380!GO:0046903;secretion;0.0131874787814422;93835,12889!GO:0051875;pigment granule localization;0.0135475251447114;110380!GO:0045176;apical protein localization;0.0146752793641013;110380!GO:0033059;cellular pigmentation;0.016002817788394;110380!GO:0008105;asymmetric protein localization;0.016002817788394;110380!GO:0016079;synaptic vesicle exocytosis;0.016002817788394;12889!GO:0051650;establishment of vesicle localization;0.016002817788394;110380!GO:0030864;cortical actin cytoskeleton;0.016002817788394;110380!GO:0002088;lens development in camera-type eye;0.016002817788394;110380!GO:0019905;syntaxin binding;0.016002817788394;12889!GO:0051648;vesicle localization;0.016002817788394;110380!GO:0008013;beta-catenin binding;0.0165812670838333;110380!GO:0007588;excretion;0.0183320410774228;93835!GO:0000149;SNARE binding;0.0187704671304693;12889!GO:0030863;cortical cytoskeleton;0.0191749827690667;110380!GO:0048593;camera-type eye morphogenesis;0.0195493558366158;110380!GO:0005326;neurotransmitter transporter activity;0.0209422952308881;12889!GO:0051656;establishment of organelle localization;0.0212294093381044;110380!GO:0030073;insulin secretion;0.02174760103004;12889!GO:0048489;synaptic vesicle transport;0.02174760103004;12889!GO:0051015;actin filament binding;0.0219821809304354;110380!GO:0005913;cell-cell adherens junction;0.0227888411667048;110380!GO:0051640;organelle localization;0.0227888411667048;110380!GO:0044448;cell cortex part;0.0227888411667048;110380!GO:0030072;peptide hormone secretion;0.0227888411667048;12889!GO:0002790;peptide secretion;0.0229629289976598;12889!GO:0051234;establishment of localization;0.026175522874545;110380,93835,12889!GO:0015833;peptide transport;0.0277329542032488;12889!GO:0008104;protein localization;0.0277329542032488;110380,93835!GO:0051649;establishment of cellular localization;0.0277329542032488;110380,12889!GO:0051641;cellular localization;0.0277329542032488;110380,12889!GO:0046879;hormone secretion;0.0277329542032488;12889!GO:0033036;macromolecule localization;0.0277329542032488;110380,93835!GO:0048592;eye morphogenesis;0.0279632143724156;110380!GO:0005938;cell cortex;0.0286644083003235;110380!GO:0006836;neurotransmitter transport;0.0286644083003235;12889!GO:0031072;heat shock protein binding;0.0286644083003235;72685!GO:0051179;localization;0.0286644083003235;110380,93835,12889!GO:0016324;apical plasma membrane;0.0286644083003235;110380!GO:0007269;neurotransmitter secretion;0.0292445867094192;12889!GO:0005912;adherens junction;0.0342779525188808;110380!GO:0045055;regulated secretory pathway;0.0352764884670792;12889!GO:0005923;tight junction;0.0378504666385024;110380!GO:0043010;camera-type eye development;0.0396075725350841;110380!GO:0043583;ear development;0.0396075725350841;110380!GO:0006887;exocytosis;0.0420607361536764;12889!GO:0004725;protein tyrosine phosphatase activity;0.0420607361536764;72685!GO:0003001;generation of a signal involved in cell-cell signaling;0.0420607361536764;12889!GO:0043296;apical junction complex;0.0420607361536764;110380!GO:0001505;regulation of neurotransmitter levels;0.0420607361536764;12889!GO:0016327;apicolateral plasma membrane;0.0423158831989473;110380!GO:0001654;eye development;0.0480668038902779;110380!
}}
}}

Revision as of 12:47, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:112512866..112512894,+p2@Amn
Mm9::chr12:73312888..73312900,-p@chr12:73312888..73312900
-
Mm9::chr14:68704745..68704754,+p@chr14:68704745..68704754
+
Mm9::chr1:81073831..81073840,+p10@9430031J16Rik
Mm9::chr4:101169150..101169203,+p4@Dnajc6
Mm9::chr4:101169281..101169327,+p5@Dnajc6
Mm9::chr5:108979194..108979227,-p2@Cplx1
Mm9::chrX:149078392..149078404,-p15@Shroom2
Mm9::chrX:149078961..149078972,-p4@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:0045177apical part of cell0.00587300717690243
GO:0002089lens morphogenesis in camera-type eye0.00587300717690243
GO:0008057eye pigment granule organization and biogenesis0.00587300717690243
GO:0043482cellular pigment accumulation0.00587300717690243
GO:0031201SNARE complex0.00587300717690243
GO:0043476pigment accumulation0.00978754086146336
GO:0032401establishment of melanosome localization0.0131874787814422
GO:0051905establishment of pigment granule localization0.0131874787814422
GO:0032438melanosome organization and biogenesis0.0131874787814422
GO:0032400melanosome localization0.0131874787814422
GO:0048753pigment granule organization and biogenesis0.0131874787814422
GO:0046903secretion0.0131874787814422
GO:0051875pigment granule localization0.0135475251447114
GO:0045176apical protein localization0.0146752793641013
GO:0033059cellular pigmentation0.016002817788394
GO:0008105asymmetric protein localization0.016002817788394
GO:0016079synaptic vesicle exocytosis0.016002817788394
GO:0051650establishment of vesicle localization0.016002817788394
GO:0030864cortical actin cytoskeleton0.016002817788394
GO:0002088lens development in camera-type eye0.016002817788394
GO:0019905syntaxin binding0.016002817788394
GO:0051648vesicle localization0.016002817788394
GO:0008013beta-catenin binding0.0165812670838333
GO:0007588excretion0.0183320410774228
GO:0000149SNARE binding0.0187704671304693
GO:0030863cortical cytoskeleton0.0191749827690667
GO:0048593camera-type eye morphogenesis0.0195493558366158
GO:0005326neurotransmitter transporter activity0.0209422952308881
GO:0051656establishment of organelle localization0.0212294093381044
GO:0030073insulin secretion0.02174760103004
GO:0048489synaptic vesicle transport0.02174760103004
GO:0051015actin filament binding0.0219821809304354
GO:0005913cell-cell adherens junction0.0227888411667048
GO:0051640organelle localization0.0227888411667048
GO:0044448cell cortex part0.0227888411667048
GO:0030072peptide hormone secretion0.0227888411667048
GO:0002790peptide secretion0.0229629289976598
GO:0051234establishment of localization0.026175522874545
GO:0015833peptide transport0.0277329542032488
GO:0008104protein localization0.0277329542032488
GO:0051649establishment of cellular localization0.0277329542032488
GO:0051641cellular localization0.0277329542032488
GO:0046879hormone secretion0.0277329542032488
GO:0033036macromolecule localization0.0277329542032488
GO:0048592eye morphogenesis0.0279632143724156
GO:0005938cell cortex0.0286644083003235
GO:0006836neurotransmitter transport0.0286644083003235
GO:0031072heat shock protein binding0.0286644083003235
GO:0051179localization0.0286644083003235
GO:0016324apical plasma membrane0.0286644083003235
GO:0007269neurotransmitter secretion0.0292445867094192
GO:0005912adherens junction0.0342779525188808
GO:0045055regulated secretory pathway0.0352764884670792
GO:0005923tight junction0.0378504666385024
GO:0043010camera-type eye development0.0396075725350841
GO:0043583ear development0.0396075725350841
GO:0006887exocytosis0.0420607361536764
GO:0004725protein tyrosine phosphatase activity0.0420607361536764
GO:0003001generation of a signal involved in cell-cell signaling0.0420607361536764
GO:0043296apical junction complex0.0420607361536764
GO:0001505regulation of neurotransmitter levels0.0420607361536764
GO:0016327apicolateral plasma membrane0.0423158831989473
GO:0001654eye development0.0480668038902779



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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