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Coexpression cluster:C1095

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Full id: C1095_heart_skin_lung_neuroblastoma_skeletal_adipose_rectum



Phase1 CAGE Peaks

Hg19::chr8:13154787..13154792,-p@chr8:13154787..13154792
-
Hg19::chr8:13372153..13372182,-p12@DLC1
Hg19::chr8:13372233..13372251,-p15@DLC1
Hg19::chr8:13372253..13372282,-p7@DLC1
Hg19::chr8:13372298..13372312,-p24@DLC1
Hg19::chr8:13372331..13372375,-p4@DLC1
Hg19::chr8:13372410..13372429,-p9@DLC1
Hg19::chr8:13372434..13372466,-p8@DLC1


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
fibroblast5.21e-1276
skin fibroblast6.94e-0823
Uber Anatomy
Ontology termp-valuen
adult organism3.80e-39114
structure with developmental contribution from neural crest4.10e-20132
neural tube6.73e-2056
neural rod6.73e-2056
future spinal cord6.73e-2056
neural keel6.73e-2056
regional part of nervous system2.88e-1853
regional part of brain2.88e-1853
regional part of forebrain1.07e-1741
forebrain1.07e-1741
anterior neural tube1.07e-1741
future forebrain1.07e-1741
neurectoderm4.29e-1786
nervous system2.88e-1689
neural plate4.31e-1682
presumptive neural plate4.31e-1682
brain5.84e-1668
future brain5.84e-1668
brain grey matter7.34e-1634
gray matter7.34e-1634
telencephalon7.34e-1634
regional part of telencephalon7.62e-1532
cerebral hemisphere9.07e-1532
central nervous system2.16e-1481
multi-tissue structure1.50e-13342
neocortex2.45e-1320
regional part of cerebral cortex5.59e-1322
tissue3.85e-12773
ectoderm-derived structure8.73e-12171
ectoderm8.73e-12171
presumptive ectoderm8.73e-12171
cerebral cortex1.35e-1125
pallium1.35e-1125
organ system subdivision3.37e-11223
pre-chordal neural plate7.51e-1161
anatomical cluster9.70e-11373
multi-cellular organism5.17e-10656
ecto-epithelium2.42e-09104
anatomical conduit1.39e-08240
cell layer3.61e-08309
epithelium9.66e-08306
tube1.47e-07192
anatomical system2.00e-07624
anatomical group2.57e-07625
primary circulatory organ7.32e-0727


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#1066474.690224326440655.26249365325459e-050.000894255734871879
EP300#203375.92719901044531.06380393527283e-050.00027623724315256
RAD21#588579.060654658524295.73112922357867e-072.64028850896045e-05
YY1#752874.297274406122129.53674534900876e-050.00136476863182396



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.