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Coexpression cluster:C4770

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Full id: C4770_Fibroblast_dura_glioblastoma_glioma_neuroblastoma_small_osteosarcoma



Phase1 CAGE Peaks

Hg19::chr8:72274290..72274320,-p2@EYA1
Hg19::chr8:72274327..72274338,-p6@EYA1
Hg19::chr8:72274355..72274372,-p4@EYA1


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>


Cell Type
Ontology termp-valuen
osteoblast2.82e-0711
osteoprogenitor cell2.82e-0711
mesenchyme condensation cell2.82e-0711
fibroblast of gingiva3.48e-075
single fate stem cell5.46e-0720
Uber Anatomy
Ontology termp-valuen
organ system subdivision1.47e-14223
ectoderm-derived structure2.20e-13171
ectoderm2.20e-13171
presumptive ectoderm2.20e-13171
nervous system6.06e-1389
brain8.04e-1368
future brain8.04e-1368
central nervous system8.29e-1381
regional part of nervous system8.98e-1253
regional part of brain8.98e-1253
neural tube1.57e-1156
neural rod1.57e-1156
future spinal cord1.57e-1156
neural keel1.57e-1156
multi-tissue structure1.15e-09342
regional part of forebrain2.42e-0941
forebrain2.42e-0941
anterior neural tube2.42e-0941
future forebrain2.42e-0941
neurectoderm7.84e-0986
structure with developmental contribution from neural crest4.43e-08132
neural plate9.57e-0882
presumptive neural plate9.57e-0882
anatomical cluster1.71e-07373
adult organism2.59e-07114
skull3.09e-077
brain grey matter3.55e-0734
gray matter3.55e-0734
telencephalon4.73e-0734
mouth9.52e-0729
stomodeum9.52e-0729


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
E2F1#186934.907389214879320.008460985347239390.0328009223712077
GABPB1#255337.067683836182170.002832212825417420.0154914358056861
GATA2#2624312.7449317335540.0004829527704283790.00439250234178956
REST#597839.650028716128020.001112636247114590.00771853982148128
ZNF263#1012738.221841637010680.001799043925565870.0110193154971658



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.