Coexpression cluster:C892
From FANTOM5_SSTAR
Full id: C892_mature_Adipocyte_liver_Hepatocyte_bile_lung_gall
Phase1 CAGE Peaks
| Hg19::chr12:16500526..16500542,+ | p4@MGST1 |
| Hg19::chr12:16500545..16500556,+ | p3@MGST1 |
| Hg19::chr12:16500571..16500598,+ | p1@MGST1 |
| Hg19::chr12:16500599..16500618,+ | p2@MGST1 |
| Hg19::chr12:16507184..16507203,+ | p7@MGST1 |
| Hg19::chr12:16516767..16516832,+ | p@chr12:16516767..16516832 + |
| Hg19::chr12:16516836..16516885,+ | p@chr12:16516836..16516885 + |
| Hg19::chr2:85581643..85581663,- | p1@RETSAT |
| Hg19::chr2:85581666..85581696,- | p2@RETSAT |
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:0031968 | organelle outer membrane | 0.000331905677938092 |
| GO:0019867 | outer membrane | 0.000331905677938092 |
| GO:0051786 | all-trans-retinol 13,14-reductase activity | 0.0016484163428706 |
| GO:0016117 | carotenoid biosynthetic process | 0.00269721005288041 |
| GO:0016114 | terpenoid biosynthetic process | 0.00269721005288041 |
| GO:0016109 | tetraterpenoid biosynthetic process | 0.00269721005288041 |
| GO:0016116 | carotenoid metabolic process | 0.00269721005288041 |
| GO:0016108 | tetraterpenoid metabolic process | 0.00269721005288041 |
| GO:0031967 | organelle envelope | 0.00269721005288041 |
| GO:0031975 | envelope | 0.00269721005288041 |
| GO:0042572 | retinol metabolic process | 0.00269721005288041 |
| GO:0001523 | retinoid metabolic process | 0.0038849809155795 |
| GO:0005640 | nuclear outer membrane | 0.0038849809155795 |
| GO:0016101 | diterpenoid metabolic process | 0.0038849809155795 |
| GO:0005783 | endoplasmic reticulum | 0.00397864652795 |
| GO:0006721 | terpenoid metabolic process | 0.0043262649554988 |
| GO:0006776 | vitamin A metabolic process | 0.00436255589995717 |
| GO:0006775 | fat-soluble vitamin metabolic process | 0.00494393887461995 |
| GO:0006749 | glutathione metabolic process | 0.00494393887461995 |
| GO:0031090 | organelle membrane | 0.00800270479558612 |
| GO:0008299 | isoprenoid biosynthetic process | 0.00800270479558612 |
| GO:0046148 | pigment biosynthetic process | 0.00831260284832906 |
| GO:0042440 | pigment metabolic process | 0.00889568357393707 |
| GO:0004364 | glutathione transferase activity | 0.00889568357393707 |
| GO:0006720 | isoprenoid metabolic process | 0.00889568357393707 |
| GO:0019748 | secondary metabolic process | 0.0100729845916541 |
| GO:0005741 | mitochondrial outer membrane | 0.0135820206985407 |
| GO:0016627 | oxidoreductase activity, acting on the CH-CH group of donors | 0.0135820206985407 |
| GO:0016765 | transferase activity, transferring alkyl or aryl (other than methyl) groups | 0.0135820206985407 |
| GO:0006766 | vitamin metabolic process | 0.0135820206985407 |
| GO:0006790 | sulfur metabolic process | 0.0135820206985407 |
| GO:0042445 | hormone metabolic process | 0.0135820206985407 |
| GO:0044453 | nuclear membrane part | 0.0165535516388697 |
| GO:0050660 | FAD binding | 0.0165535516388697 |
| GO:0031965 | nuclear membrane | 0.0212881140823036 |
| GO:0005792 | microsome | 0.0222008869305807 |
| GO:0042598 | vesicular fraction | 0.0225319063857361 |
| GO:0016705 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen | 0.0229747799532204 |
| GO:0005635 | nuclear envelope | 0.0245295652737168 |
| GO:0044446 | intracellular organelle part | 0.0302733803357529 |
| GO:0044422 | organelle part | 0.0302733803357529 |
| GO:0006732 | coenzyme metabolic process | 0.0330957864467546 |
| GO:0050662 | coenzyme binding | 0.0330957864467546 |
| GO:0044444 | cytoplasmic part | 0.03423899830737 |
| GO:0005743 | mitochondrial inner membrane | 0.03423899830737 |
| GO:0019866 | organelle inner membrane | 0.0348664034193558 |
| GO:0008610 | lipid biosynthetic process | 0.0348664034193558 |
| GO:0051186 | cofactor metabolic process | 0.0351600446510186 |
| GO:0031966 | mitochondrial membrane | 0.0409301019669531 |
| GO:0048037 | cofactor binding | 0.0416234381856567 |
| GO:0005740 | mitochondrial envelope | 0.0416234381856567 |
| GO:0005789 | endoplasmic reticulum membrane | 0.0432632584406575 |
| GO:0042175 | nuclear envelope-endoplasmic reticulum network | 0.043275309226933 |
| GO:0044432 | endoplasmic reticulum part | 0.047257146654818 |
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>
| Ontology term | p-value | n |
|---|---|---|
| non-terminally differentiated cell | 2.41e-12 | 180 |
| fat cell | 9.31e-11 | 15 |
| fibroblast | 2.04e-09 | 75 |
| muscle precursor cell | 2.58e-09 | 57 |
| myoblast | 2.58e-09 | 57 |
| multi-potent skeletal muscle stem cell | 2.58e-09 | 57 |
| muscle cell | 2.32e-08 | 54 |
| electrically responsive cell | 6.72e-08 | 60 |
| electrically active cell | 6.72e-08 | 60 |
| contractile cell | 3.87e-07 | 59 |
| embryonic cell | 5.56e-07 | 248 |
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
This analysis result is provided for C0 - C305 clusters.
