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Coexpression cluster:C3639

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Full id: C3639_testis_testicular_small_epidermoid_choriocarcinoma_argyrophil_hereditary



Phase1 CAGE Peaks

Hg19::chr17:42733789..42733802,+p3@C17orf104
Hg19::chr17:42733803..42733843,+p1@C17orf104
Hg19::chr7:99775520..99775578,+p1@STAG3


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:0007130synaptonemal complex assembly0.00360591075002944
GO:0007129synapsis0.00360591075002944
GO:0000795synaptonemal complex0.00446446092860787
GO:0000794condensed nuclear chromosome0.00664986138317117
GO:0007127meiosis I0.00664986138317117
GO:0000793condensed chromosome0.00664986138317117
GO:0007059chromosome segregation0.00664986138317117
GO:0044454nuclear chromosome part0.00664986138317117
GO:0051327M phase of meiotic cell cycle0.00664986138317117
GO:0007126meiosis0.00664986138317117
GO:0051321meiotic cell cycle0.00664986138317117
GO:0000228nuclear chromosome0.00849964676792652
GO:0000279M phase0.0242507404287694
GO:0022403cell cycle phase0.0271547156481808
GO:0044427chromosomal part0.0318693826288316
GO:0005694chromosome0.0324834985212736
GO:0051276chromosome organization and biogenesis0.0324834985212736
GO:0022402cell cycle process0.0357729241074349
GO:0022607cellular component assembly0.0432194159896385
GO:0007049cell cycle0.0432194159896385



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
germ line cell5.02e-137
germ cell5.02e-137
embryonic stem cell1.10e-115
Uber Anatomy
Ontology termp-valuen
testis1.78e-118
male reproductive organ1.62e-1011
Disease
Ontology termp-valuen
bronchus cancer6.34e-097
bronchogenic carcinoma6.34e-097
respiratory system cancer1.44e-0816
cell type cancer2.70e-08143
lung cancer3.89e-0715
cancer5.38e-07235


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
MAX#414936.452555509007120.003721913834265510.0186325835939438
SETDB1#9869340.32002617801051.52461559299059e-050.000358382462111961



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.