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Coexpression cluster:C4043

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Full id: C4043_Mesenchymal_Synoviocyte_Adipocyte_mature_tenocyte_Smooth_Multipotent



Phase1 CAGE Peaks

Hg19::chr20:44462430..44462476,+p1@SNX21
Hg19::chr20:44462481..44462497,+p4@SNX21
Hg19::chr20:44462801..44462825,+p2@SNX21


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
multi-cellular organism7.14e-18656
epithelial vesicle1.31e-1478
dense mesenchyme tissue3.20e-1473
somite5.58e-1471
presomitic mesoderm5.58e-1471
presumptive segmental plate5.58e-1471
dermomyotome5.58e-1471
trunk paraxial mesoderm5.58e-1471
paraxial mesoderm6.39e-1472
presumptive paraxial mesoderm6.39e-1472
anatomical system7.65e-14624
anatomical group1.00e-13625
epithelium1.78e-13306
multi-tissue structure2.48e-13342
cell layer2.83e-13309
multilaminar epithelium2.12e-1283
mesenchyme2.74e-12160
entire embryonic mesenchyme2.74e-12160
trunk mesenchyme3.01e-12122
organism subdivision3.20e-12264
muscle tissue3.21e-1264
musculature3.21e-1264
musculature of body3.21e-1264
skeletal muscle tissue3.62e-1262
striated muscle tissue3.62e-1262
myotome3.62e-1262
trunk5.66e-12199
anatomical conduit1.88e-11240
structure with developmental contribution from neural crest2.45e-10132
tube1.83e-09192
anatomical cluster2.82e-09373
surface structure5.46e-0999
embryo4.28e-08592
splanchnic layer of lateral plate mesoderm5.08e-0883
organ6.92e-08503
adipose tissue1.06e-0714
adult organism1.13e-07114
germ layer2.92e-07560
germ layer / neural crest2.92e-07560
embryonic tissue2.92e-07560
presumptive structure2.92e-07560
germ layer / neural crest derived structure2.92e-07560
epiblast (generic)2.92e-07560
embryonic structure3.05e-07564
developing anatomical structure3.66e-07581
integument4.05e-0746
integumental system4.05e-0746
unilaminar epithelium7.25e-07148
systemic artery7.68e-0733
systemic arterial system7.68e-0733


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
GABPB1#255337.067683836182170.002832212825417420.0154332398661051
ZBTB33#10009221.10981668665410.002928597060603240.0156386004914788
ZBTB7A#5134137.35190930787590.002516255860282270.0140427084424505
ZNF263#1012738.221841637010680.001799043925565870.010958261317052



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.