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Coexpression cluster:C684

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Full id: C684_pagetoid_mesothelioma_placenta_bone_papillotubular_Hair_Fibroblast



Phase1 CAGE Peaks

Hg19::chr11:12061317..12061323,-p@chr11:12061317..12061323
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Hg19::chr12:127762515..127762539,-p@chr12:127762515..127762539
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Hg19::chr14:102706939..102706979,-p4@MOK
Hg19::chr17:49500350..49500395,+p@chr17:49500350..49500395
+
Hg19::chr19:49547099..49547106,+p1@CGB5
Hg19::chr22:49818414..49818424,+p@chr22:49818414..49818424
+
Hg19::chr22:49819110..49819121,-p5@C22orf34
Hg19::chr2:28201109..28201125,+p2@BRE
Hg19::chr3:45174403..45174415,+p@chr3:45174403..45174415
+
Hg19::chr5:174252830..174252847,+p@chr5:174252830..174252847
+
Hg19::chr5:174252850..174252859,+p@chr5:174252850..174252859
+
Hg19::chr6:45626924..45626929,+p@chr6:45626924..45626929
+


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:0000268peroxisome targeting sequence binding0.00353232073472271
GO:0045768positive regulation of anti-apoptosis0.00706464146944542
GO:0045767regulation of anti-apoptosis0.00706464146944542
GO:0005048signal sequence binding0.00741787354291769
GO:0000152nuclear ubiquitin ligase complex0.00741787354291769
GO:0005164tumor necrosis factor receptor binding0.0103446535802594
GO:0032813tumor necrosis factor receptor superfamily binding0.0103446535802594
GO:0000151ubiquitin ligase complex0.0183239138113741
GO:0006916anti-apoptosis0.0333608069390478
GO:0042277peptide binding0.0338514070410927
GO:0043066negative regulation of apoptosis0.0338514070410927
GO:0043069negative regulation of programmed cell death0.0338514070410927
GO:0005125cytokine activity0.0421161318370785



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
non-terminally differentiated cell8.15e-26180
animal cell1.65e-17679
eukaryotic cell1.65e-17679
fibroblast4.99e-1775
mesodermal cell3.98e-14119
muscle precursor cell2.27e-1157
myoblast2.27e-1157
multi-potent skeletal muscle stem cell2.27e-1157
native cell2.45e-11722
skin fibroblast4.92e-1123
somatic cell8.64e-11591
contractile cell1.13e-1059
muscle cell4.84e-1054
embryonic cell1.08e-08248
electrically responsive cell1.05e-0760
electrically active cell1.05e-0760
smooth muscle cell1.21e-0742
smooth muscle myoblast1.21e-0742
multi fate stem cell3.96e-07430
Uber Anatomy
Ontology termp-valuen
somite1.07e-1383
paraxial mesoderm1.07e-1383
presomitic mesoderm1.07e-1383
presumptive segmental plate1.07e-1383
trunk paraxial mesoderm1.07e-1383
presumptive paraxial mesoderm1.07e-1383
dermomyotome4.10e-1370
trunk mesenchyme6.04e-13143
multilaminar epithelium3.71e-1282
skeletal muscle tissue4.59e-1061
striated muscle tissue4.59e-1061
myotome4.59e-1061
integument3.44e-0945
integumental system3.44e-0945
muscle tissue4.36e-0963
musculature4.36e-0963
musculature of body4.36e-0963
skin of body8.33e-0940
trunk2.37e-08216
organism subdivision7.98e-08365
unilaminar epithelium9.95e-08138
epithelial tube4.62e-07118
mesenchyme7.05e-07238
entire embryonic mesenchyme7.05e-07238


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.