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Coexpression cluster:C4207

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Full id: C4207_Mesenchymal_Fibroblast_Adipocyte_Pancreatic_Trabecular_tenocyte_Hair



Phase1 CAGE Peaks

Hg19::chr2:239756536..239756564,-p1@BC143627
Hg19::chr2:239756671..239756732,+p1@TWIST2
Hg19::chr2:239756739..239756755,+p2@TWIST2


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:0045668negative regulation of osteoblast differentiation0.00868362180619333
GO:0045667regulation of osteoblast differentiation0.00868362180619333
GO:0001649osteoblast differentiation0.0144727030103222
GO:0045596negative regulation of cell differentiation0.0202617842144511
GO:0051093negative regulation of developmental process0.0202617842144511
GO:0001503ossification0.0202617842144511
GO:0031214biomineral formation0.0202617842144511
GO:0046849bone remodeling0.0202617842144511
GO:0048771tissue remodeling0.0202617842144511
GO:0045595regulation of cell differentiation0.0250088308018368
GO:0045892negative regulation of transcription, DNA-dependent0.0285891548696211
GO:0001501skeletal development0.0285891548696211
GO:0016564transcription repressor activity0.0285891548696211
GO:0050793regulation of developmental process0.0292762106608804
GO:0016481negative regulation of transcription0.0325891218373609
GO:0009888tissue development0.0325891218373609
GO:0045934negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0325891218373609
GO:0031324negative regulation of cellular metabolic process0.0367606656462185
GO:0009892negative regulation of metabolic process0.039853253763161



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
somite1.14e-2371
presomitic mesoderm1.14e-2371
presumptive segmental plate1.14e-2371
dermomyotome1.14e-2371
trunk paraxial mesoderm1.14e-2371
dense mesenchyme tissue3.79e-2373
paraxial mesoderm8.51e-2372
presumptive paraxial mesoderm8.51e-2372
multilaminar epithelium1.49e-2183
epithelial vesicle5.53e-2178
skeletal muscle tissue7.50e-1962
striated muscle tissue7.50e-1962
myotome7.50e-1962
muscle tissue9.40e-1964
musculature9.40e-1964
musculature of body9.40e-1964
surface structure7.80e-1799
integument1.29e-1546
integumental system1.29e-1546
trunk mesenchyme1.62e-13122
skin of body8.83e-1341
unilaminar epithelium4.30e-12148
splanchnic layer of lateral plate mesoderm7.73e-1283
artery2.31e-1142
arterial blood vessel2.31e-1142
arterial system2.31e-1142
mesenchyme3.02e-11160
entire embryonic mesenchyme3.02e-11160
organism subdivision3.26e-11264
multi-cellular organism7.21e-10656
systemic artery7.24e-1033
systemic arterial system7.24e-1033
adipose tissue1.03e-0914
epithelial tube open at both ends1.38e-0959
blood vessel1.38e-0959
blood vasculature1.38e-0959
vascular cord1.38e-0959
anatomical system1.54e-09624
vasculature2.42e-0978
vascular system2.42e-0978
anatomical group2.44e-09625
mesoderm3.24e-09315
mesoderm-derived structure3.24e-09315
presumptive mesoderm3.24e-09315
trunk5.01e-09199
multi-tissue structure1.86e-08342
vessel1.80e-0768
cardiovascular system1.81e-07109
circulatory system2.09e-07112
tissue6.55e-07773


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#105137.971147625824820.001974187055288560.011549525087793
CTCF#1066435.360256373075030.0064925092527670.0280217858438604
E2F1#186934.907389214879320.008460985347239390.0326313459630847



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.