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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C389_heart_left_umbilical_skin_skeletal_trachea_throat
|full_id=C389_heart_left_umbilical_skin_skeletal_trachea_throat
|gostat_on_coexpression_clusters=GO:0055009!atrial cardiac muscle morphogenesis!0.00230254981226369!4624$GO:0030898!actin-dependent ATPase activity!0.00230254981226369!4624$GO:0030049!muscle filament sliding!0.00230254981226369!4624$GO:0033275!actin-myosin filament sliding!0.00230254981226369!4624$GO:0002027!regulation of heart rate!0.00230254981226369!4624$GO:0055010!ventricular cardiac muscle morphogenesis!0.00230254981226369!4624$GO:0007512!adult heart development!0.00230254981226369!4624$GO:0048644!muscle morphogenesis!0.00230254981226369!4624$GO:0055008!cardiac muscle morphogensis!0.00230254981226369!4624$GO:0000146!microfilament motor activity!0.00318814589390358!4624$GO:0030048!actin filament-based movement!0.00318814589390358!4624$GO:0032982!myosin filament!0.00318814589390358!4624$GO:0005863!striated muscle thick filament!0.00318814589390358!4624$GO:0005859!muscle myosin complex!0.0044899721339142!4624$GO:0016460!myosin II complex!0.0044899721339142!4624$GO:0006941!striated muscle contraction!0.00592084237439235!4624$GO:0008016!regulation of heart contraction!0.00592084237439235!4624$GO:0008307!structural constituent of muscle!0.00592084237439235!4624$GO:0060047!heart contraction!0.00592084237439235!4624$GO:0003015!heart process!0.00592084237439235!4624$GO:0030017!sarcomere!0.00592084237439235!4624$GO:0030016!myofibril!0.00624043329801013!4624$GO:0044449!contractile fiber part!0.00675748314468692!4624$GO:0043292!contractile fiber!0.00690764943679108!4624$GO:0007507!heart development!0.00973978570587542!4624$GO:0016459!myosin complex!0.0106603628327401!4624$GO:0005516!calmodulin binding!0.0135274801470492!4624$GO:0008015!blood circulation!0.0137874454484338!4624$GO:0003013!circulatory system process!0.0137874454484338!4624$GO:0003012!muscle system process!0.0137874454484338!4624$GO:0006936!muscle contraction!0.0137874454484338!4624$GO:0007517!muscle development!0.013923230896032!4624$GO:0030705!cytoskeleton-dependent intracellular transport!0.0153852192001256!4624$GO:0030029!actin filament-based process!0.019808700590798!4624$GO:0051239!regulation of multicellular organismal process!0.0205009167213335!4624$GO:0015629!actin cytoskeleton!0.0212985857634392!4624$GO:0009887!organ morphogenesis!0.0253436057039024!4624$GO:0003779!actin binding!0.0298574057892878!4624$GO:0042623!ATPase activity, coupled!0.0350696048329393!4624$GO:0008092!cytoskeletal protein binding!0.0390498057223596!4624$GO:0016887!ATPase activity!0.0397400441683682!4624$GO:0007010!cytoskeleton organization and biogenesis!0.0423093528003454!4624
|id=C389
|id=C389
}}
}}

Revision as of 17:39, 18 May 2012


Full id: C389_heart_left_umbilical_skin_skeletal_trachea_throat



Phase1 CAGE Peaks

Hg19::chr10:25242626..25242636,-p@chr10:25242626..25242636
-
Hg19::chr12:114886577..114886589,-p@chr12:114886577..114886589
-
Hg19::chr12:4735761..4735787,-p@chr12:4735761..4735787
-
Hg19::chr13:93329902..93329916,-p@chr13:93329902..93329916
-
Hg19::chr14:23853394..23853399,-p@chr14:23853394..23853399
-
Hg19::chr14:23854188..23854193,-p@chr14:23854188..23854193
-
Hg19::chr14:23854202..23854211,-p@chr14:23854202..23854211
-
Hg19::chr14:23862577..23862585,-p5@MYH6
Hg19::chr14:23862929..23862940,-p@chr14:23862929..23862940
-
Hg19::chr14:23863036..23863066,-p@chr14:23863036..23863066
-
Hg19::chr14:23863088..23863103,-p@chr14:23863088..23863103
-
Hg19::chr14:23863108..23863123,-p@chr14:23863108..23863123
-
Hg19::chr14:23863373..23863402,-p@chr14:23863373..23863402
-
Hg19::chr14:23863442..23863452,-p@chr14:23863442..23863452
-
Hg19::chr14:23867985..23867992,-p@chr14:23867985..23867992
-
Hg19::chr14:23872542..23872556,-p@chr14:23872542..23872556
-
Hg19::chr14:23876809..23876833,-p8@MYH6
Hg19::chr14:23877474..23877491,-p1@MYH6
Hg19::chr19:56057552..56057564,-p@chr19:56057552..56057564
-
Hg19::chr2:159976509..159976519,+p@chr2:159976509..159976519
+
Hg19::chr3:178103144..178103153,-p1@ENST00000417383
Hg19::chr4:174926997..174927004,+p@chr4:174926997..174927004
+
Hg19::chr5:117897774..117897788,-p1@ENST00000506769
p1@ENST00000515704
Hg19::chr5:148803658..148803668,+p@chr5:148803658..148803668
+
Hg19::chr7:25815812..25815822,-p@chr7:25815812..25815822
-
Hg19::chr7:44178491..44178498,-p@chr7:44178491..44178498
-
Hg19::chr8:111668033..111668039,+p@chr8:111668033..111668039
+


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:0055009atrial cardiac muscle morphogenesis0.00230254981226369
GO:0030898actin-dependent ATPase activity0.00230254981226369
GO:0030049muscle filament sliding0.00230254981226369
GO:0033275actin-myosin filament sliding0.00230254981226369
GO:0002027regulation of heart rate0.00230254981226369
GO:0055010ventricular cardiac muscle morphogenesis0.00230254981226369
GO:0007512adult heart development0.00230254981226369
GO:0048644muscle morphogenesis0.00230254981226369
GO:0055008cardiac muscle morphogensis0.00230254981226369
GO:0000146microfilament motor activity0.00318814589390358
GO:0030048actin filament-based movement0.00318814589390358
GO:0032982myosin filament0.00318814589390358
GO:0005863striated muscle thick filament0.00318814589390358
GO:0005859muscle myosin complex0.0044899721339142
GO:0016460myosin II complex0.0044899721339142
GO:0006941striated muscle contraction0.00592084237439235
GO:0008016regulation of heart contraction0.00592084237439235
GO:0008307structural constituent of muscle0.00592084237439235
GO:0060047heart contraction0.00592084237439235
GO:0003015heart process0.00592084237439235
GO:0030017sarcomere0.00592084237439235
GO:0030016myofibril0.00624043329801013
GO:0044449contractile fiber part0.00675748314468692
GO:0043292contractile fiber0.00690764943679108
GO:0007507heart development0.00973978570587542
GO:0016459myosin complex0.0106603628327401
GO:0005516calmodulin binding0.0135274801470492
GO:0008015blood circulation0.0137874454484338
GO:0003013circulatory system process0.0137874454484338
GO:0003012muscle system process0.0137874454484338
GO:0006936muscle contraction0.0137874454484338
GO:0007517muscle development0.013923230896032
GO:0030705cytoskeleton-dependent intracellular transport0.0153852192001256
GO:0030029actin filament-based process0.019808700590798
GO:0051239regulation of multicellular organismal process0.0205009167213335
GO:0015629actin cytoskeleton0.0212985857634392
GO:0009887organ morphogenesis0.0253436057039024
GO:0003779actin binding0.0298574057892878
GO:0042623ATPase activity, coupled0.0350696048329393
GO:0008092cytoskeletal protein binding0.0390498057223596
GO:0016887ATPase activity0.0397400441683682
GO:0007010cytoskeleton organization and biogenesis0.0423093528003454



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.

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