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Coexpression cluster:C3571

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Full id: C3571_Neutrophils_Mast_CD14_Eosinophils_Dendritic_thyroid_Prostate



Phase1 CAGE Peaks

Hg19::chr16:55542958..55542972,+p3@LPCAT2
Hg19::chr16:55542976..55543003,+p1@LPCAT2
Hg19::chr16:55543013..55543047,+p2@LPCAT2


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
lateral plate mesoderm2.31e-29203
bone marrow7.15e-2376
hematopoietic system1.80e-2298
blood island1.80e-2298
hemolymphoid system8.36e-22108
immune system1.52e-1893
bone element1.54e-1882
mesoderm1.24e-17315
mesoderm-derived structure1.24e-17315
presumptive mesoderm1.24e-17315
skeletal element2.60e-1690
anatomical system4.29e-16624
anatomical group9.28e-16625
embryonic structure1.05e-15564
germ layer1.36e-14560
germ layer / neural crest1.36e-14560
embryonic tissue1.36e-14560
presumptive structure1.36e-14560
germ layer / neural crest derived structure1.36e-14560
epiblast (generic)1.36e-14560
skeletal system3.31e-14100
multi-cellular organism3.61e-14656
developing anatomical structure3.77e-13581
embryo1.87e-12592
musculoskeletal system1.50e-10167
organ1.86e-09503
cardiovascular system1.43e-07109
circulatory system2.39e-07112
splanchnic layer of lateral plate mesoderm5.10e-0783


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
ELF1#199734.258097958807540.01295179875054610.0461458366495508
IRF1#365937.63716375356390.002244692747297240.0127882100062719
NRF1#4899312.21027944771090.0005492172401020010.00470624379217369
TFAP2C#7022310.80922860986020.0007916746575753130.00614688198368211
THAP1#55145331.36914460285133.23800758564397e-050.000646110573628335



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.