Coexpression cluster:C546

Full id: C546_Chondrocyte_heart_mature_Adipocyte_teratocarcinoma_aorta_dura

Phase1 CAGE Peaks

Hg19::chr1:203316711..203316750,-	p14@FMOD
Hg19::chr1:203317084..203317101,-	p10@FMOD
Hg19::chr1:203317142..203317164,-	p9@FMOD
Hg19::chr1:203317172..203317190,-	p12@FMOD
Hg19::chr1:203317193..203317209,-	p11@FMOD
Hg19::chr1:203317210..203317231,-	p4@FMOD
Hg19::chr1:203317215..203317230,+	p@chr1:203317215..203317230 +
Hg19::chr1:203317232..203317258,+	p@chr1:203317232..203317258 +
Hg19::chr1:203317238..203317258,-	p7@FMOD
Hg19::chr1:203317259..203317301,-	p6@FMOD
Hg19::chr1:203317308..203317324,-	p5@FMOD
Hg19::chr1:203317353..203317375,-	p3@FMOD
Hg19::chr1:203317378..203317395,-	p8@FMOD
Hg19::chr1:203317396..203317407,-	p15@FMOD
Hg19::chr1:203320210..203320240,-	p1@FMOD
Hg19::chr1:203320243..203320268,-	p2@FMOD
Hg19::chr1:203444976..203444984,+	p7@PRELP

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 ID	GO name	FDR corrected p-value
GO:0005578	proteinaceous extracellular matrix	0.00341442593854242
GO:0007181	transforming growth factor beta receptor complex assembly	0.00341442593854242
GO:0044421	extracellular region part	0.00692871299278988
GO:0007179	transforming growth factor beta receptor signaling pathway	0.0213257131623092
GO:0043623	cellular protein complex assembly	0.0216017803139587
GO:0007178	transmembrane receptor protein serine/threonine kinase signaling pathway	0.0216017803139587
GO:0005201	extracellular matrix structural constituent	0.0299456268119611
GO:0001501	skeletal development	0.0444663593839121

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 term	p-value	n
non-terminally differentiated cell	4.36e-10	180
fat cell	1.43e-09	15
fibroblast	2.66e-08	75

Uber Anatomy

Ontology term	p-value	n
adult organism	7.81e-20	115
organism subdivision	1.34e-13	365
multi-cellular organism	1.54e-12	659
multi-tissue structure	4.75e-12	347
anatomical cluster	2.30e-09	286
epithelium	2.15e-08	309
cell layer	3.16e-08	312
anatomical conduit	3.38e-08	241
anatomical group	3.70e-08	626
anatomical system	6.04e-08	625
primary circulatory organ	1.70e-07	27
organ	6.23e-07	511
trunk	8.05e-07	216
trunk mesenchyme	9.33e-07	143

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.