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Coexpression cluster:C2625

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Full id: C2625_oral_keratoacanthoma_bronchial_Small_ductal_squamous_Keratinocyte



Phase1 CAGE Peaks

Hg19::chr20:6103574..6103587,-p7@FERMT1
Hg19::chr20:6103596..6103610,-p8@FERMT1
Hg19::chr20:6103612..6103621,-p14@FERMT1
Hg19::chr20:6103666..6103737,-p1@FERMT1


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
endoderm-derived structure2.11e-21160
endoderm2.11e-21160
presumptive endoderm2.11e-21160
digestive system1.26e-18145
digestive tract1.26e-18145
primitive gut1.26e-18145
respiratory system6.71e-1674
subdivision of digestive tract3.59e-14118
respiratory tract9.79e-1254
multi-tissue structure2.40e-11342
segment of respiratory tract5.69e-1147
orifice1.48e-0936
organ system subdivision1.83e-09223
foregut4.82e-0987
respiratory primordium8.13e-0938
endoderm of foregut8.13e-0938
organism subdivision8.32e-09264
organ part2.07e-08218
anterior region of body2.90e-0862
craniocervical region2.90e-0862
anatomical cluster5.08e-08373
head5.58e-0856
organ segment1.02e-0798
oral opening1.20e-0722
endo-epithelium1.65e-0782
mouth3.31e-0729
stomodeum3.31e-0729
mucosa6.54e-0720
Disease
Ontology termp-valuen
carcinoma1.67e-19106
cell type cancer1.78e-16143
squamous cell carcinoma2.81e-1114
disease of cellular proliferation2.58e-08239
cancer3.17e-08235


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
CTCF#1066445.360256373075030.001211145381643620.00817969558416182
HDAC2#3066413.41562023662633.0859005065161e-050.00062689819684893
HEY1#2346244.040111043105710.00375304636917980.0186286017656371
HNF4A#3172423.13229036295373.48990320893214e-060.00011570857182148
MAX#414946.452555509007120.0005767613195645490.00485738048979936
MXI1#460149.96157162875930.0001015224754950450.00142512174976169
MYC#460945.22228187160940.001344309395272740.00888372114229874
TAF1#687243.343046285745290.008005664898701650.0322608186269824
TAF7#6879411.43306940492395.85061525419808e-050.000970354782488793
TBP#690843.706770687096390.005296377814784350.0244539523695076
TFAP2C#7022410.80922860986027.32289634782688e-050.00114662064718245



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.