Coexpression cluster:C68
From FANTOM5_SSTAR
Full id: C68_amniotic_chorionic_Placental_salivary_placenta_tongue_mesothelioma
Phase1 CAGE Peaks
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:0001533 | cornified envelope | 0.00129701549136975 |
| GO:0022610 | biological adhesion | 0.00129701549136975 |
| GO:0007155 | cell adhesion | 0.00129701549136975 |
| GO:0030216 | keratinocyte differentiation | 0.00147525618609471 |
| GO:0005856 | cytoskeleton | 0.00267588150295275 |
| GO:0007398 | ectoderm development | 0.00516874682700244 |
| GO:0030057 | desmosome | 0.00703665581281274 |
| GO:0005911 | intercellular junction | 0.00748042826855757 |
| GO:0009225 | nucleotide-sugar metabolic process | 0.0110276536242873 |
| GO:0030054 | cell junction | 0.0171064449733669 |
| GO:0005523 | tropomyosin binding | 0.0171064449733669 |
| GO:0048856 | anatomical structure development | 0.0171064449733669 |
| GO:0005515 | protein binding | 0.0171064449733669 |
| GO:0030835 | negative regulation of actin filament depolymerization | 0.0171064449733669 |
| GO:0030834 | regulation of actin filament depolymerization | 0.0171064449733669 |
| GO:0030042 | actin filament depolymerization | 0.0171064449733669 |
| GO:0006525 | arginine metabolic process | 0.017509990297827 |
| GO:0043228 | non-membrane-bound organelle | 0.017509990297827 |
| GO:0043232 | intracellular non-membrane-bound organelle | 0.017509990297827 |
| GO:0015629 | actin cytoskeleton | 0.021290153615831 |
| GO:0048869 | cellular developmental process | 0.021290153615831 |
| GO:0030154 | cell differentiation | 0.021290153615831 |
| GO:0009888 | tissue development | 0.021290153615831 |
| GO:0008544 | epidermis development | 0.021290153615831 |
| GO:0000051 | urea cycle intermediate metabolic process | 0.021290153615831 |
| GO:0016337 | cell-cell adhesion | 0.0305143414631182 |
| GO:0008064 | regulation of actin polymerization and/or depolymerization | 0.0305143414631182 |
| GO:0044430 | cytoskeletal part | 0.0305143414631182 |
| GO:0051261 | protein depolymerization | 0.0305143414631182 |
| GO:0030832 | regulation of actin filament length | 0.0305143414631182 |
| GO:0032502 | developmental process | 0.0305143414631182 |
| GO:0014704 | intercalated disc | 0.0305143414631182 |
| GO:0032535 | regulation of cellular component size | 0.0305143414631182 |
| GO:0032956 | regulation of actin cytoskeleton organization and biogenesis | 0.0305143414631182 |
| GO:0051129 | negative regulation of cellular component organization and biogenesis | 0.0305143414631182 |
| GO:0005912 | adherens junction | 0.0305143414631182 |
| GO:0042353 | fucose biosynthetic process | 0.0305143414631182 |
| GO:0005055 | laminin receptor activity | 0.0305143414631182 |
| GO:0016316 | phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity | 0.0305143414631182 |
| GO:0015349 | thyroid hormone transmembrane transporter activity | 0.0305143414631182 |
| GO:0016403 | dimethylargininase activity | 0.0305143414631182 |
| GO:0048384 | retinoic acid receptor signaling pathway | 0.0305143414631182 |
| GO:0005462 | UDP-N-acetylglucosamine transmembrane transporter activity | 0.0305143414631182 |
| GO:0006005 | L-fucose biosynthetic process | 0.0305143414631182 |
| GO:0015788 | UDP-N-acetylglucosamine transport | 0.0305143414631182 |
| GO:0008446 | GDP-mannose 4,6-dehydratase activity | 0.0305143414631182 |
| GO:0040009 | regulation of growth rate | 0.0305143414631182 |
| GO:0046368 | GDP-L-fucose metabolic process | 0.0305143414631182 |
| GO:0042350 | GDP-L-fucose biosynthetic process | 0.0305143414631182 |
| GO:0042351 | 'de novo' GDP-L-fucose biosynthetic process | 0.0305143414631182 |
| GO:0043163 | cell envelope organization and biogenesis | 0.0305143414631182 |
| GO:0033043 | regulation of organelle organization and biogenesis | 0.0305143414631182 |
| GO:0051493 | regulation of cytoskeleton organization and biogenesis | 0.0305143414631182 |
| GO:0008154 | actin polymerization and/or depolymerization | 0.0352339214424331 |
| GO:0009653 | anatomical structure morphogenesis | 0.0352339214424331 |
| GO:0019673 | GDP-mannose metabolic process | 0.0397894764815883 |
| GO:0009226 | nucleotide-sugar biosynthetic process | 0.0397894764815883 |
| GO:0004687 | myosin light chain kinase activity | 0.0397894764815883 |
| GO:0005047 | signal recognition particle binding | 0.0397894764815883 |
| GO:0048251 | elastic fiber assembly | 0.0397894764815883 |
| GO:0030036 | actin cytoskeleton organization and biogenesis | 0.0477090583476725 |
| GO:0004740 | pyruvate dehydrogenase (acetyl-transferring) kinase activity | 0.0497024538475879 |
| GO:0015643 | toxin binding | 0.0497024538475879 |
| GO:0003785 | actin monomer binding | 0.0497024538475879 |
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>
| Ontology term | p-value | n |
|---|
| Ontology term | p-value | n |
|---|
| 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) |
|---|---|
|
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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
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