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Coexpression cluster:C796

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Full id: C796_acute_chronic_spleen_CD4_CD19_thymus_hairy



Phase1 CAGE Peaks

Hg19::chr11:134145533..134145544,+p@chr11:134145533..134145544
+
Hg19::chr15:58306150..58306166,-p11@ALDH1A2
Hg19::chr16:89168753..89168765,+p7@ACSF3
Hg19::chr16:89168993..89169001,+p12@ACSF3
Hg19::chr18:13461585..13461593,-p@chr18:13461585..13461593
-
Hg19::chr20:36374175..36374183,+p@chr20:36374175..36374183
+
Hg19::chr22:50260492..50260508,+p@chr22:50260492..50260508
+
Hg19::chr2:128377550..128377603,+p3@MYO7B
Hg19::chr5:75922796..75922808,+p@chr5:75922796..75922808
+
Hg19::chr6:36922281..36922298,+p7@PI16


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:0001758retinal dehydrogenase activity0.00918200645017186
GO:00040283-chloroallyl aldehyde dehydrogenase activity0.00918200645017186
GO:0006776vitamin A metabolic process0.0137657132538232
GO:0006775fat-soluble vitamin metabolic process0.0137657132538232
GO:0016620oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor0.0305472731774997
GO:0016903oxidoreductase activity, acting on the aldehyde or oxo group of donors0.036621125000449
GO:0006766vitamin metabolic process0.0374698771781282



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><br>


Cell Type
Ontology termp-valuen
lymphoid lineage restricted progenitor cell6.48e-2052
lymphocyte2.90e-1953
common lymphoid progenitor2.90e-1953
T cell4.06e-1925
pro-T cell4.06e-1925
mature alpha-beta T cell2.82e-1218
alpha-beta T cell2.82e-1218
immature T cell2.82e-1218
mature T cell2.82e-1218
immature alpha-beta T cell2.82e-1218
B cell2.73e-0814
CD4-positive, alpha-beta T cell3.26e-076
Uber Anatomy
Ontology termp-valuen
hemopoietic organ1.22e-077
blood1.35e-0715
haemolymphatic fluid1.35e-0715
organism substance1.35e-0715
cavity lining1.79e-0712
serous membrane1.79e-0712
adult organism2.35e-07115


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)

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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.