Coexpression cluster:C2721

Full id: C2721_Preadipocyte_Smooth_Mast_Fibroblast_Mesenchymal_mesenchymal_Myoblast

Phase1 CAGE Peaks

Hg19::chr3:139108446..139108457,-	p3@COPB2
Hg19::chr3:139108463..139108474,-	p2@COPB2
Hg19::chr3:139108475..139108518,-	p1@COPB2
Hg19::chr6:83902933..83903005,-	p1@PGM3

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:0004610	phosphoacetylglucosamine mutase activity	0.00447427293064877
GO:0006890	retrograde vesicle-mediated transport, Golgi to ER	0.0126741212418515
GO:0030126	COPI vesicle coat	0.0126741212418515
GO:0030663	COPI coated vesicle membrane	0.0126741212418515
GO:0006891	intra-Golgi vesicle-mediated transport	0.0126741212418515
GO:0030137	COPI-coated vesicle	0.0126741212418515
GO:0016868	intramolecular transferase activity, phosphotransferases	0.0185286344708939
GO:0006041	glucosamine metabolic process	0.0195651482442882
GO:0006040	amino sugar metabolic process	0.0203707987891853
GO:0030120	vesicle coat	0.0207290900904621
GO:0030662	coated vesicle membrane	0.0207290900904621
GO:0016866	intramolecular transferase activity	0.0237242956795106
GO:0005798	Golgi-associated vesicle	0.0237242956795106
GO:0048193	Golgi vesicle transport	0.0272703770303969
GO:0030659	cytoplasmic vesicle membrane	0.0272703770303969
GO:0044433	cytoplasmic vesicle part	0.0272703770303969
GO:0012506	vesicle membrane	0.0272703770303969
GO:0030117	membrane coat	0.0272703770303969
GO:0048475	coated membrane	0.0272703770303969
GO:0030135	coated vesicle	0.0327374462988358
GO:0008565	protein transporter activity	0.0327374462988358
GO:0045045	secretory pathway	0.0486385500290966

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>disease_data<br>

---

Cell Type

Ontology term	p-value	n

Uber Anatomy

Ontology term	p-value	n

Disease

Ontology term	p-value	n

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.