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Coexpression cluster:C1542

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Full id: C1542_Fibroblast_ductal_liposarcoma_large_normal_mesenchymal_Myoblast



Phase1 CAGE Peaks

  Short description
Hg19::chr8:18942243..18942259,- p8@PSD3
Hg19::chr8:18942279..18942294,- p11@PSD3
Hg19::chr8:18942296..18942344,- p6@PSD3
Hg19::chr8:18942386..18942401,- p22@PSD3
Hg19::chr8:18942407..18942448,- p14@PSD3
Hg19::chr8:18942514..18942527,- p24@PSD3


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
non-terminally differentiated cell2.04e-33180
fibroblast3.88e-2575
multi fate stem cell6.19e-15430
skin fibroblast3.41e-1423
somatic stem cell1.47e-13436
stem cell4.85e-12444
muscle precursor cell2.55e-1157
myoblast2.55e-1157
multi-potent skeletal muscle stem cell2.55e-1157
connective tissue cell8.64e-10365
muscle cell9.12e-1054
contractile cell1.98e-0959
mesenchymal cell2.93e-08358
electrically responsive cell2.33e-0760
electrically active cell2.33e-0760
motile cell2.33e-07390
somatic cell2.69e-07591
Uber Anatomy
Ontology termp-valuen
somite6.94e-1883
paraxial mesoderm6.94e-1883
presomitic mesoderm6.94e-1883
presumptive segmental plate6.94e-1883
trunk paraxial mesoderm6.94e-1883
presumptive paraxial mesoderm6.94e-1883
dermomyotome6.38e-1570
trunk mesenchyme5.39e-13143
tissue2.10e-11787
muscle tissue2.98e-1163
musculature2.98e-1163
musculature of body2.98e-1163
multilaminar epithelium3.35e-1182
skeletal muscle tissue4.71e-1161
striated muscle tissue4.71e-1161
myotome4.71e-1161
connective tissue5.31e-11375
organism subdivision1.36e-10365
skin of body6.95e-0940
integument8.59e-0945
integumental system8.59e-0945
multi-tissue structure1.68e-08347
musculoskeletal system3.34e-08167
surface structure7.75e-0895
multi-cellular organism4.10e-07659
anatomical system8.14e-07625


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
FOS#235368.99795530889441.88302066097805e-066.94914469299952e-05
GATA2#2624612.7449317335542.33109997620343e-071.22772440955476e-05
POLR2A#543062.147453176558070.01019570676818780.0380772186362513



Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.