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Coexpression cluster:C2095

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Full id: C2095_Mast_Retinal_CD14_bile_lung_cervical_Gingival



Phase1 CAGE Peaks

Hg19::chr11:112034761..112034772,-p4@IL18
Hg19::chr11:112034780..112034795,-p3@IL18
Hg19::chr11:112034803..112034824,-p1@IL18
Hg19::chr11:112034831..112034848,-p2@IL18


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
bone marrow3.00e-1880
organ1.20e-17511
hematopoietic system4.42e-16102
blood island4.42e-16102
bone element2.98e-1486
hemolymphoid system6.38e-14112
immune system2.21e-11115
skeletal element2.40e-11101
skeletal system2.40e-11101
endoderm-derived structure2.03e-10169
endoderm2.03e-10169
presumptive endoderm2.03e-10169
subdivision of digestive tract2.73e-09129
endodermal part of digestive tract2.73e-09129
digestive system4.53e-09155
digestive tract4.53e-09155
primitive gut4.53e-09155
respiratory tract1.73e-0853
respiratory system3.58e-0872
respiratory primordium1.03e-0738
endoderm of foregut1.03e-0738
larynx3.02e-079
adult organism3.35e-07115
segment of respiratory tract9.40e-0746
foregut9.51e-0798
Disease
Ontology termp-valuen
carcinoma1.08e-10106
squamous cell carcinoma5.90e-0714


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
CEBPB#105147.971147625824820.0002476385788090830.00267512676171305
CTCF#1066445.360256373075030.001211145381643620.00815491022587056
ELF1#199744.258097958807540.003041525565781240.0160528546879233
GATA3#2625427.2365163572061.81561517799785e-066.74567888918239e-05
GTF2F1#2962412.73966087675773.79492332235515e-050.000716446125928145
HEY1#2346244.040111043105710.00375304636917980.0185492598433945
TAF1#687243.343046285745290.008005664898701650.032118301949735
TBP#690843.706770687096390.005296377814784350.0243452490030484



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.