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Coexpression cluster:C665

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Full id: C665_amniotic_esophagus_tongue_Corneal_tonsil_salivary_Urothelial



Phase1 CAGE Peaks

Hg19::chr17:74023373..74023426,-p1@EVPL
Hg19::chr19:43965722..43965760,+p1@CU691667
Hg19::chr19:43969748..43969768,-p1@LYPD3
Hg19::chr19:43969782..43969794,-p3@LYPD3
Hg19::chr19:43969796..43969813,-p2@LYPD3
Hg19::chr19:43969827..43969834,-p4@LYPD3
Hg19::chr19:49055390..49055410,+p2@SULT2B1
Hg19::chr19:49055416..49055451,+p1@SULT2B1
Hg19::chr1:156254091..156254143,+p2@TMEM79
Hg19::chr1:201368653..201368705,-p2@LAD1
Hg19::chr1:26680570..26680632,-p1@AIM1L
Hg19::chr7:1600419..1600429,-p11@TMEM184A
Hg19::chr7:1600433..1600475,-p2@TMEM184A


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


GO IDGO nameFDR corrected p-value
GO:0050294steroid sulfotransferase activity0.00700576945720005
GO:0004027alcohol sulfotransferase activity0.00700576945720005



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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure7.57e-29169
endoderm7.57e-29169
presumptive endoderm7.57e-29169
digestive system2.57e-22155
digestive tract2.57e-22155
primitive gut2.57e-22155
respiratory system1.06e-1972
mixed endoderm/mesoderm-derived structure5.42e-19130
subdivision of digestive tract1.06e-18129
endodermal part of digestive tract1.06e-18129
organ1.27e-15511
foregut2.56e-1498
anatomical space1.16e-13104
respiratory tract1.64e-1353
immaterial anatomical entity1.36e-12126
respiratory primordium2.85e-1138
endoderm of foregut2.85e-1138
endo-epithelium5.27e-1182
orifice1.13e-1035
segment of respiratory tract2.37e-1046
trunk region element2.77e-10107
epithelial bud2.03e-0937
thoracic segment organ2.11e-0935
oral opening2.48e-0921
thoracic cavity element3.39e-0934
thoracic cavity3.39e-0934
embryo4.36e-09612
multi-cellular organism5.91e-09659
anatomical system4.80e-08625
embryonic structure6.64e-08605
developing anatomical structure6.64e-08605
anatomical group6.78e-08626
mesoderm1.34e-07448
mesoderm-derived structure1.34e-07448
presumptive mesoderm1.34e-07448
germ layer1.35e-07604
embryonic tissue1.35e-07604
presumptive structure1.35e-07604
epiblast (generic)1.35e-07604
lung2.24e-0722
respiratory tube2.24e-0722
respiration organ2.24e-0722
pair of lungs2.24e-0722
lung primordium2.24e-0722
lung bud2.24e-0722
renal system3.98e-0745
mesenchyme5.61e-07238
entire embryonic mesenchyme5.61e-07238
primordium7.12e-07168
urinary system structure8.93e-0744
Disease
Ontology termp-valuen
carcinoma4.44e-21106
cell type cancer6.94e-12143
squamous cell carcinoma1.00e-0714
adenocarcinoma1.03e-0725


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#186972.642440346473480.007795016405580970.0320248502569714
MYC#4609124.82056788148562.59727634246585e-081.80237172047037e-06
TFAP2A#702045.082656730167680.006165214423051180.0272545536139277
TFAP2C#702254.157395619177010.004615369219926170.0218021867094789



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.