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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C618_skeletal_heart_left_diaphragm_throat_skin_maxillary
|full_id=C618_skeletal_heart_left_diaphragm_throat_skin_maxillary
|gostat_on_coexpression_clusters=GO:0016459!myosin complex!0.000402943405822179!8736;57644$GO:0015629!actin cytoskeleton!0.00155109408377679!8736;57644$GO:0044430!cytoskeletal part!0.00772230272679474!8736;57644$GO:0032982!myosin filament!0.00772230272679474!8736$GO:0005863!striated muscle thick filament!0.00772230272679474!8736$GO:0005859!muscle myosin complex!0.00891040668937179!8736$GO:0016460!myosin II complex!0.00891040668937179!8736$GO:0005856!cytoskeleton!0.00891040668937179!8736;57644$GO:0006941!striated muscle contraction!0.00991794678464657!8736$GO:0008307!structural constituent of muscle!0.0101316428173755!8736$GO:0030017!sarcomere!0.010525451995305!8736$GO:0030016!myofibril!0.0106525809272849!8736$GO:0044449!contractile fiber part!0.0110240654734831!8736$GO:0043292!contractile fiber!0.0110240654734831!8736$GO:0043234!protein complex!0.0178123998291474!8736;57644$GO:0043232!intracellular non-membrane-bound organelle!0.0178123998291474!8736;57644$GO:0043228!non-membrane-bound organelle!0.0178123998291474!8736;57644$GO:0003012!muscle system process!0.0209109374396495!8736$GO:0006936!muscle contraction!0.0209109374396495!8736$GO:0032991!macromolecular complex!0.0267761009008234!8736;57644$GO:0044446!intracellular organelle part!0.0275376365500003!8736;57644$GO:0044422!organelle part!0.0275376365500003!8736;57644$GO:0003779!actin binding!0.0456705904149696!57644
|id=C618
|id=C618
}}
}}

Revision as of 17:41, 18 May 2012


Full id: C618_skeletal_heart_left_diaphragm_throat_skin_maxillary



Phase1 CAGE Peaks

Hg19::chr10:919094..919101,-p@chr10:919094..919101
-
Hg19::chr10:919161..919172,-p@chr10:919161..919172
-
Hg19::chr18:3219935..3219940,-p5@MYOM1
Hg19::chr19:3950387..3950398,+p@chr19:3950387..3950398
+
Hg19::chr20:33565724..33565728,+p3@MYH7B
Hg19::chr2:179494327..179494343,-p@chr2:179494327..179494343
-
Hg19::chr2:179494358..179494367,-p@chr2:179494358..179494367
-
Hg19::chr2:179494375..179494392,-p@chr2:179494375..179494392
-
Hg19::chr2:179494404..179494433,-p@chr2:179494404..179494433
-
Hg19::chr2:179665435..179665442,-p@chr2:179665435..179665442
-
Hg19::chr5:191638..191646,+p9@LRRC14B
Hg19::chr6:73471730..73471745,+p@chr6:73471730..73471745
+
Hg19::chr7:123241658..123241669,-p@chr7:123241658..123241669
-
Hg19::chr8:124665994..124666002,-p@chr8:124665994..124666002
-


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


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


GO IDGO nameFDR corrected p-value
GO:0016459myosin complex0.000402943405822179
GO:0015629actin cytoskeleton0.00155109408377679
GO:0044430cytoskeletal part0.00772230272679474
GO:0032982myosin filament0.00772230272679474
GO:0005863striated muscle thick filament0.00772230272679474
GO:0005859muscle myosin complex0.00891040668937179
GO:0016460myosin II complex0.00891040668937179
GO:0005856cytoskeleton0.00891040668937179
GO:0006941striated muscle contraction0.00991794678464657
GO:0008307structural constituent of muscle0.0101316428173755
GO:0030017sarcomere0.010525451995305
GO:0030016myofibril0.0106525809272849
GO:0044449contractile fiber part0.0110240654734831
GO:0043292contractile fiber0.0110240654734831
GO:0043234protein complex0.0178123998291474
GO:0043232intracellular non-membrane-bound organelle0.0178123998291474
GO:0043228non-membrane-bound organelle0.0178123998291474
GO:0003012muscle system process0.0209109374396495
GO:0006936muscle contraction0.0209109374396495
GO:0032991macromolecular complex0.0267761009008234
GO:0044446intracellular organelle part0.0275376365500003
GO:0044422organelle part0.0275376365500003
GO:0003779actin binding0.0456705904149696



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


Overrepresented TFBS (DNA) motifs on this co-expression cluster<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}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.