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Coexpression cluster:C947

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Full id: C947_bone_Myoblast_mesenchymal_uterus_Preadipocyte_Ciliary_Astrocyte



Phase1 CAGE Peaks

Hg19::chr4:169552580..169552593,+p11@PALLD
Hg19::chr4:169552605..169552617,+p16@PALLD
Hg19::chr4:169552619..169552630,+p18@PALLD
Hg19::chr4:169552655..169552669,+p7@PALLD
Hg19::chr4:169552670..169552691,+p14@PALLD
Hg19::chr4:169552715..169552745,+p3@PALLD
Hg19::chr4:169552748..169552774,+p2@PALLD
Hg19::chr4:169552791..169552801,+p9@PALLD
Hg19::chr4:169552802..169552809,+p19@PALLD


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>


Uber Anatomy
Ontology termp-valuen
multi-cellular organism6.40e-18659
organism subdivision1.96e-15365
multi-tissue structure1.41e-14347
anatomical system4.34e-12625
anatomical group7.77e-12626
embryo1.79e-11612
embryonic structure7.07e-11605
developing anatomical structure7.07e-11605
germ layer1.63e-10604
embryonic tissue1.63e-10604
presumptive structure1.63e-10604
epiblast (generic)1.63e-10604
somite6.84e-1083
paraxial mesoderm6.84e-1083
presomitic mesoderm6.84e-1083
presumptive segmental plate6.84e-1083
trunk paraxial mesoderm6.84e-1083
presumptive paraxial mesoderm6.84e-1083
multilaminar epithelium8.97e-1082
cell layer1.11e-09312
muscle tissue3.41e-0963
musculature3.41e-0963
musculature of body3.41e-0963
skeletal muscle tissue4.21e-0961
striated muscle tissue4.21e-0961
myotome4.21e-0961
mesenchyme4.54e-09238
entire embryonic mesenchyme4.54e-09238
epithelium7.94e-09309
trunk2.28e-08216
organ part9.87e-08219
trunk mesenchyme1.29e-07143
dermomyotome1.31e-0770
organ1.92e-07511


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#105197.971147625824827.68639245640067e-095.94196255924523e-07
CTBP2#1488855.74844474606943.67209272148066e-146.04904876559493e-12
CTCF#1066495.360256373075032.73502355701625e-071.40434181549272e-05
E2F1#186994.907389214879326.05361650687803e-072.77904903016191e-05
EP300#203353.763300959012890.005242178461590750.0242885353955049
MYC#460995.22228187160943.45859747011211e-071.71028627453143e-05
POLR2A#543092.147453176558070.001029412892608020.00728985985157916
RAD21#588589.204474573738966.21516790927479e-083.84313748535672e-06
SMC3#9126915.04493284493282.52522080270298e-112.98338840965493e-09
TAF1#687293.343046285745291.91655056102793e-050.000433721828912668
TBP#690893.706770687096397.56501052505806e-060.000215987461516276
TFAP2C#7022910.80922860986024.95470456774184e-104.79577748239472e-08



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.