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MCL coexpression mm9:2533: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0030049;muscle filament sliding;0.00635477151876984;17904!GO:0016461;unconventional myosin complex;0.00635477151876984;17904!GO:0033275;actin-myosin filament sliding;0.00635477151876984;17904!GO:0007010;cytoskeleton organization and biogenesis;0.00867692153529255;11475,17904!GO:0008307;structural constituent of muscle;0.0101662416797126;17904!GO:0030048;actin filament-based movement;0.0158817059832277;17904!GO:0005856;cytoskeleton;0.0183301361737783;11475,17904!GO:0006996;organelle organization and biogenesis;0.0262599155568277;11475,17904!GO:0016459;myosin complex;0.0338518410700433;17904!GO:0043232;intracellular non-membrane-bound organelle;0.0338518410700433;11475,17904!GO:0043228;non-membrane-bound organelle;0.0338518410700433;11475,17904!GO:0003012;muscle system process;0.0388216747284698;17904!GO:0006936;muscle contraction;0.0388216747284698;17904!GO:0005200;structural constituent of cytoskeleton;0.0388216747284698;11475!GO:0007519;skeletal muscle development;0.0388216747284698;17904!GO:0030705;cytoskeleton-dependent intracellular transport;0.0388216747284698;17904!GO:0014706;striated muscle development;0.0454561548028362;17904!
|gostat_on_MCL_coexpression=GO:0030049;muscle filament sliding;0.00635477151876984;17904!GO:0016461;unconventional myosin complex;0.00635477151876984;17904!GO:0033275;actin-myosin filament sliding;0.00635477151876984;17904!GO:0007010;cytoskeleton organization and biogenesis;0.00867692153529255;11475,17904!GO:0008307;structural constituent of muscle;0.0101662416797126;17904!GO:0030048;actin filament-based movement;0.0158817059832277;17904!GO:0005856;cytoskeleton;0.0183301361737783;11475,17904!GO:0006996;organelle organization and biogenesis;0.0262599155568277;11475,17904!GO:0016459;myosin complex;0.0338518410700433;17904!GO:0043232;intracellular non-membrane-bound organelle;0.0338518410700433;11475,17904!GO:0043228;non-membrane-bound organelle;0.0338518410700433;11475,17904!GO:0003012;muscle system process;0.0388216747284698;17904!GO:0006936;muscle contraction;0.0388216747284698;17904!GO:0005200;structural constituent of cytoskeleton;0.0388216747284698;11475!GO:0007519;skeletal muscle development;0.0388216747284698;17904!GO:0030705;cytoskeleton-dependent intracellular transport;0.0388216747284698;17904!GO:0014706;striated muscle development;0.0454561548028362;17904!
}}
}}

Revision as of 13:14, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127930011..127930023,-p4@Myl6
Mm9::chr10:127930027..127930090,-p2@Myl6
Mm9::chr19:34329815..34329832,-p1@Acta2


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:0030049muscle filament sliding0.00635477151876984
GO:0016461unconventional myosin complex0.00635477151876984
GO:0033275actin-myosin filament sliding0.00635477151876984
GO:0007010cytoskeleton organization and biogenesis0.00867692153529255
GO:0008307structural constituent of muscle0.0101662416797126
GO:0030048actin filament-based movement0.0158817059832277
GO:0005856cytoskeleton0.0183301361737783
GO:0006996organelle organization and biogenesis0.0262599155568277
GO:0016459myosin complex0.0338518410700433
GO:0043232intracellular non-membrane-bound organelle0.0338518410700433
GO:0043228non-membrane-bound organelle0.0338518410700433
GO:0003012muscle system process0.0388216747284698
GO:0006936muscle contraction0.0388216747284698
GO:0005200structural constituent of cytoskeleton0.0388216747284698
GO:0007519skeletal muscle development0.0388216747284698
GO:0030705cytoskeleton-dependent intracellular transport0.0388216747284698
GO:0014706striated muscle development0.0454561548028362



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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