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Coexpression cluster:C3424

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Full id: C3424_skeletal_tongue_diaphragm_mesenchymal_Fibroblast_basal_smooth



Phase1 CAGE Peaks

Hg19::chr14:35183771..35183784,-p4@CFL2
Hg19::chr14:35183785..35183826,-p1@CFL2
Hg19::chr14:35183837..35183867,-p2@CFL2


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
organism subdivision1.51e-26365
multi-tissue structure6.28e-22347
cell layer1.89e-19312
epithelium9.55e-19309
somite3.15e-1783
paraxial mesoderm3.15e-1783
presomitic mesoderm3.15e-1783
presumptive segmental plate3.15e-1783
trunk paraxial mesoderm3.15e-1783
presumptive paraxial mesoderm3.15e-1783
anatomical cluster5.77e-16286
trunk mesenchyme1.76e-15143
dermomyotome2.52e-1470
multi-cellular organism1.03e-13659
anatomical conduit1.94e-13241
trunk1.31e-12216
muscle tissue2.75e-1263
musculature2.75e-1263
musculature of body2.75e-1263
adult organism5.48e-12115
skeletal muscle tissue5.75e-1261
striated muscle tissue5.75e-1261
myotome5.75e-1261
tube1.61e-11194
anatomical system1.71e-11625
anatomical group2.59e-11626
regional part of nervous system2.62e-1194
nervous system2.62e-1194
multilaminar epithelium4.35e-1182
ectoderm-derived structure3.71e-10169
neural tube5.39e-1057
neural rod5.39e-1057
future spinal cord5.39e-1057
neural keel5.39e-1057
mesenchyme6.45e-10238
entire embryonic mesenchyme6.45e-10238
ectoderm6.70e-10173
presumptive ectoderm6.70e-10173
regional part of brain8.64e-1059
head9.13e-10123
brain9.38e-1069
future brain9.38e-1069
central nervous system1.21e-0982
neural plate1.60e-0986
presumptive neural plate1.60e-0986
unilaminar epithelium3.48e-09138
neurectoderm4.47e-0990
anterior region of body6.52e-09129
craniocervical region6.52e-09129
embryonic structure6.68e-08605
developing anatomical structure6.68e-08605
germ layer7.98e-08604
embryonic tissue7.98e-08604
presumptive structure7.98e-08604
epiblast (generic)7.98e-08604
organ part9.67e-08219
embryo1.68e-07612
surface structure2.78e-0795
regional part of forebrain8.70e-0741
forebrain8.70e-0741
future forebrain8.70e-0741


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


No analysis results for this cluster

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.