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Coexpression cluster:C2920

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Full id: C2920_liver_Mesenchymal_Neutrophils_Osteoblast_Melanocyte_testis_CD14



Phase1 CAGE Peaks

Hg19::chr8:145065410..145065446,+p7@GRINA
Hg19::chr8:145065457..145065489,+p6@GRINA
Hg19::chr8:145065521..145065547,+p9@GRINA
Hg19::chr8:145065705..145065731,+p5@GRINA


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


No GOStat results

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>


Uber Anatomy
Ontology termp-valuen
multi-cellular organism1.34e-18656
anatomical system7.89e-18624
anatomical group1.85e-17625
germ layer6.48e-16560
germ layer / neural crest6.48e-16560
embryonic tissue6.48e-16560
presumptive structure6.48e-16560
germ layer / neural crest derived structure6.48e-16560
epiblast (generic)6.48e-16560
embryonic structure1.28e-15564
developing anatomical structure1.34e-14581
mesoderm4.65e-14315
mesoderm-derived structure4.65e-14315
presumptive mesoderm4.65e-14315
embryo7.33e-14592
adult organism1.12e-12114
lateral plate mesoderm1.36e-10203
organ2.83e-09503
hemolymphoid system4.97e-09108
immune system1.55e-0893
bone marrow1.76e-0876
hematopoietic system1.90e-0898
blood island1.90e-0898
skeletal system3.85e-08100
skeletal element5.98e-0890
musculoskeletal system6.04e-08167
bone element6.26e-0882
anatomical conduit5.59e-07240


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
CCNT2#90534.752151182721970.01386206996689490.0487487617103015
ETS1#211337.296570691651750.00400857377511390.0192147712731376
ZBTB7A#5134135.513931980906920.009038352821081090.0342633949285259



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.