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MCL coexpression mm9:2479: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0042685;cardioblast cell fate specification;0.00657426176518929;16412!GO:0042684;cardioblast cell fate commitment;0.00657426176518929;16412!GO:0010002;cardioblast differentiation;0.00986085235671182;16412!GO:0002102;podosome;0.00986085235671182;326618!GO:0031941;filamentous actin;0.0165981967165556;326618!GO:0045214;sarcomere organization;0.0165981967165556;16412!GO:0031594;neuromuscular junction;0.0165981967165556;16412!GO:0030239;myofibril assembly;0.0165981967165556;16412!GO:0055002;striated muscle cell development;0.0165981967165556;16412!GO:0055001;muscle cell development;0.0165981967165556;16412!GO:0035051;cardiac cell differentiation;0.0165981967165556;16412!GO:0030863;cortical cytoskeleton;0.0165981967165556;326618!GO:0031032;actomyosin structure organization and biogenesis;0.0165981967165556;16412!GO:0048628;myoblast maturation;0.0165981967165556;16412!GO:0048627;myoblast development;0.0165981967165556;16412!GO:0005178;integrin binding;0.0165981967165556;16412!GO:0005884;actin filament;0.0165981967165556;326618!GO:0001708;cell fate specification;0.0165981967165556;16412!GO:0000082;G1/S transition of mitotic cell cycle;0.0165981967165556;16412!GO:0042383;sarcolemma;0.0173188502188161;16412!GO:0044448;cell cortex part;0.0173188502188161;326618!GO:0051146;striated muscle cell differentiation;0.0173188502188161;16412!GO:0008305;integrin complex;0.0194193766222151;16412!GO:0045445;myoblast differentiation;0.0197038751080447;16412!GO:0051325;interphase;0.0207114902502578;16412!GO:0051329;interphase of mitotic cell cycle;0.0207114902502578;16412!GO:0005938;cell cortex;0.0228593283850328;326618!GO:0032403;protein complex binding;0.0229796598781254;16412!GO:0019717;synaptosome;0.0235437237573873;16412!GO:0042692;muscle cell differentiation;0.0251245228129955;16412!GO:0007160;cell-matrix adhesion;0.0251245228129955;16412!GO:0048741;skeletal muscle fiber development;0.0251245228129955;16412!GO:0048747;muscle fiber development;0.0251245228129955;16412!GO:0043234;protein complex;0.0251245228129955;326618,16412!GO:0031589;cell-substrate adhesion;0.0251245228129955;16412!GO:0043235;receptor complex;0.0262444587297404;16412!GO:0048469;cell maturation;0.0262444587297404;16412!GO:0045596;negative regulation of cell differentiation;0.0293434924889218;16412!GO:0007229;integrin-mediated signaling pathway;0.029839141300271;16412!GO:0021700;developmental maturation;0.029839141300271;16412!GO:0007519;skeletal muscle development;0.0303876390862631;16412!GO:0045165;cell fate commitment;0.0312211055229063;16412!GO:0051093;negative regulation of developmental process;0.0315284890423223;16412!GO:0032991;macromolecular complex;0.0315284890423223;326618,16412!GO:0001701;in utero embryonic development;0.0346581434509376;16412!GO:0014706;striated muscle development;0.0347565801341027;16412!GO:0045595;regulation of cell differentiation;0.0420080360732898;16412!GO:0030036;actin cytoskeleton organization and biogenesis;0.0420080360732898;16412!GO:0030029;actin filament-based process;0.0434557838213296;16412!GO:0007517;muscle development;0.0434557838213296;16412!GO:0007507;heart development;0.0436255024541881;16412!GO:0008284;positive regulation of cell proliferation;0.0442893493205074;16412!GO:0015629;actin cytoskeleton;0.0468921679718131;326618!
|gostat_on_MCL_coexpression=GO:0042685;cardioblast cell fate specification;0.00657426176518929;16412!GO:0042684;cardioblast cell fate commitment;0.00657426176518929;16412!GO:0010002;cardioblast differentiation;0.00986085235671182;16412!GO:0002102;podosome;0.00986085235671182;326618!GO:0031941;filamentous actin;0.0165981967165556;326618!GO:0045214;sarcomere organization;0.0165981967165556;16412!GO:0031594;neuromuscular junction;0.0165981967165556;16412!GO:0030239;myofibril assembly;0.0165981967165556;16412!GO:0055002;striated muscle cell development;0.0165981967165556;16412!GO:0055001;muscle cell development;0.0165981967165556;16412!GO:0035051;cardiac cell differentiation;0.0165981967165556;16412!GO:0030863;cortical cytoskeleton;0.0165981967165556;326618!GO:0031032;actomyosin structure organization and biogenesis;0.0165981967165556;16412!GO:0048628;myoblast maturation;0.0165981967165556;16412!GO:0048627;myoblast development;0.0165981967165556;16412!GO:0005178;integrin binding;0.0165981967165556;16412!GO:0005884;actin filament;0.0165981967165556;326618!GO:0001708;cell fate specification;0.0165981967165556;16412!GO:0000082;G1/S transition of mitotic cell cycle;0.0165981967165556;16412!GO:0042383;sarcolemma;0.0173188502188161;16412!GO:0044448;cell cortex part;0.0173188502188161;326618!GO:0051146;striated muscle cell differentiation;0.0173188502188161;16412!GO:0008305;integrin complex;0.0194193766222151;16412!GO:0045445;myoblast differentiation;0.0197038751080447;16412!GO:0051325;interphase;0.0207114902502578;16412!GO:0051329;interphase of mitotic cell cycle;0.0207114902502578;16412!GO:0005938;cell cortex;0.0228593283850328;326618!GO:0032403;protein complex binding;0.0229796598781254;16412!GO:0019717;synaptosome;0.0235437237573873;16412!GO:0042692;muscle cell differentiation;0.0251245228129955;16412!GO:0007160;cell-matrix adhesion;0.0251245228129955;16412!GO:0048741;skeletal muscle fiber development;0.0251245228129955;16412!GO:0048747;muscle fiber development;0.0251245228129955;16412!GO:0043234;protein complex;0.0251245228129955;326618,16412!GO:0031589;cell-substrate adhesion;0.0251245228129955;16412!GO:0043235;receptor complex;0.0262444587297404;16412!GO:0048469;cell maturation;0.0262444587297404;16412!GO:0045596;negative regulation of cell differentiation;0.0293434924889218;16412!GO:0007229;integrin-mediated signaling pathway;0.029839141300271;16412!GO:0021700;developmental maturation;0.029839141300271;16412!GO:0007519;skeletal muscle development;0.0303876390862631;16412!GO:0045165;cell fate commitment;0.0312211055229063;16412!GO:0051093;negative regulation of developmental process;0.0315284890423223;16412!GO:0032991;macromolecular complex;0.0315284890423223;326618,16412!GO:0001701;in utero embryonic development;0.0346581434509376;16412!GO:0014706;striated muscle development;0.0347565801341027;16412!GO:0045595;regulation of cell differentiation;0.0420080360732898;16412!GO:0030036;actin cytoskeleton organization and biogenesis;0.0420080360732898;16412!GO:0030029;actin filament-based process;0.0434557838213296;16412!GO:0007517;muscle development;0.0434557838213296;16412!GO:0007507;heart development;0.0436255024541881;16412!GO:0008284;positive regulation of cell proliferation;0.0442893493205074;16412!GO:0015629;actin cytoskeleton;0.0468921679718131;326618!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004535!1.69e-07!23;UBERON:0001009!1.69e-07!23;UBERON:0004872!3.43e-07!33
}}
}}

Revision as of 18:32, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr8:131256722..131256746,+p@chr8:131256722..131256746
+
Mm9::chr8:131256759..131256778,+p@chr8:131256759..131256778
+
Mm9::chr8:26061312..26061316,-p@chr8:26061312..26061316
-
Mm9::chr8:74676495..74676509,+p@chr8:74676495..74676509
+


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:0042685cardioblast cell fate specification0.00657426176518929
GO:0042684cardioblast cell fate commitment0.00657426176518929
GO:0010002cardioblast differentiation0.00986085235671182
GO:0002102podosome0.00986085235671182
GO:0031941filamentous actin0.0165981967165556
GO:0045214sarcomere organization0.0165981967165556
GO:0031594neuromuscular junction0.0165981967165556
GO:0030239myofibril assembly0.0165981967165556
GO:0055002striated muscle cell development0.0165981967165556
GO:0055001muscle cell development0.0165981967165556
GO:0035051cardiac cell differentiation0.0165981967165556
GO:0030863cortical cytoskeleton0.0165981967165556
GO:0031032actomyosin structure organization and biogenesis0.0165981967165556
GO:0048628myoblast maturation0.0165981967165556
GO:0048627myoblast development0.0165981967165556
GO:0005178integrin binding0.0165981967165556
GO:0005884actin filament0.0165981967165556
GO:0001708cell fate specification0.0165981967165556
GO:0000082G1/S transition of mitotic cell cycle0.0165981967165556
GO:0042383sarcolemma0.0173188502188161
GO:0044448cell cortex part0.0173188502188161
GO:0051146striated muscle cell differentiation0.0173188502188161
GO:0008305integrin complex0.0194193766222151
GO:0045445myoblast differentiation0.0197038751080447
GO:0051325interphase0.0207114902502578
GO:0051329interphase of mitotic cell cycle0.0207114902502578
GO:0005938cell cortex0.0228593283850328
GO:0032403protein complex binding0.0229796598781254
GO:0019717synaptosome0.0235437237573873
GO:0042692muscle cell differentiation0.0251245228129955
GO:0007160cell-matrix adhesion0.0251245228129955
GO:0048741skeletal muscle fiber development0.0251245228129955
GO:0048747muscle fiber development0.0251245228129955
GO:0043234protein complex0.0251245228129955
GO:0031589cell-substrate adhesion0.0251245228129955
GO:0043235receptor complex0.0262444587297404
GO:0048469cell maturation0.0262444587297404
GO:0045596negative regulation of cell differentiation0.0293434924889218
GO:0007229integrin-mediated signaling pathway0.029839141300271
GO:0021700developmental maturation0.029839141300271
GO:0007519skeletal muscle development0.0303876390862631
GO:0045165cell fate commitment0.0312211055229063
GO:0051093negative regulation of developmental process0.0315284890423223
GO:0032991macromolecular complex0.0315284890423223
GO:0001701in utero embryonic development0.0346581434509376
GO:0014706striated muscle development0.0347565801341027
GO:0045595regulation of cell differentiation0.0420080360732898
GO:0030036actin cytoskeleton organization and biogenesis0.0420080360732898
GO:0030029actin filament-based process0.0434557838213296
GO:0007517muscle development0.0434557838213296
GO:0007507heart development0.0436255024541881
GO:0008284positive regulation of cell proliferation0.0442893493205074
GO:0015629actin cytoskeleton0.0468921679718131



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
cardiovascular system1.69e-0723
circulatory system1.69e-0723
splanchnic layer of lateral plate mesoderm3.43e-0733


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}}}