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Coexpression cluster:C1284

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Full id: C1284_mucinous_ductal_small_endometrial_adrenal_extraskeletal_large



Phase1 CAGE Peaks

Hg19::chr7:83824097..83824114,-p1@SEMA3A
Hg19::chr7:83824169..83824176,-p6@SEMA3A
Hg19::chr7:83824279..83824295,-p7@SEMA3A
Hg19::chr7:83824296..83824315,-p2@SEMA3A
Hg19::chr7:83824392..83824434,-p3@SEMA3A
Hg19::chr7:83824449..83824496,-p4@SEMA3A
Hg19::chr7:83824512..83824536,-p10@SEMA3A


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
fibroblast1.23e-0876
electrically responsive cell2.68e-0761
electrically active cell2.68e-0761
non-terminally differentiated cell3.48e-07106
skin fibroblast3.72e-0723
Uber Anatomy
Ontology termp-valuen
anatomical cluster7.10e-20373
anatomical system4.09e-18624
anatomical group6.06e-18625
multi-tissue structure5.80e-17342
multi-cellular organism1.52e-16656
organ system subdivision7.62e-13223
organ9.36e-12503
structure with developmental contribution from neural crest3.50e-11132
embryo1.79e-10592
ectoderm-derived structure2.76e-10171
ectoderm2.76e-10171
presumptive ectoderm2.76e-10171
cell layer1.37e-09309
epithelium2.05e-09306
organism subdivision1.12e-08264
surface structure1.34e-0899
organ part1.35e-08218
central nervous system1.97e-0881
developing anatomical structure2.27e-08581
embryonic structure2.58e-08564
intestine2.79e-0817
anatomical conduit3.98e-08240
nervous system4.24e-0889
germ layer4.58e-08560
germ layer / neural crest4.58e-08560
embryonic tissue4.58e-08560
presumptive structure4.58e-08560
germ layer / neural crest derived structure4.58e-08560
epiblast (generic)4.58e-08560
digestive system2.09e-07145
digestive tract2.09e-07145
primitive gut2.09e-07145
gastrointestinal system2.19e-0725
neurectoderm3.10e-0786


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#1066475.360256373075037.86114662284756e-060.000222556327498936
EP300#203376.77394172622321.52695018318475e-065.86945712851058e-05
JUND#372776.994663941871031.21993360047445e-064.9287677098627e-05
POLR2A#543072.147453176558070.004747636447610280.0223602436505962
SIN3A#2594275.408884726815147.3795239773719e-060.000211733545239765
TAF1#687273.343046285745290.0002142336319622450.00246875717626668
TCF7L2#6934710.77017656313735.9423478161588e-083.69852719649469e-06
TRIM28#10155718.59052504526251.300439693691e-091.17488426617123e-07
ZZZ3#260097239.4132124352332.15856704034244e-174.51780727708064e-15



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.