Coexpression cluster:C1437
From FANTOM5_SSTAR
Full id: C1437_Mesenchymal_Osteoblast_Renal_Pericytes_Placental_Fibroblast_Nucleus
Phase1 CAGE Peaks
| Hg19::chr17:79791135..79791175,- | p1@FAM195B |
| Hg19::chr19:507487..507508,+ | p1@TPGS1 |
| Hg19::chr1:36789194..36789256,- | p1@FAM176B |
| Hg19::chr1:36789257..36789268,- | p2@FAM176B |
| Hg19::chr3:49395753..49395769,- | p3@GPX1 |
| Hg19::chr6:144416737..144416766,- | p2@SF3B5 |
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:0010269 | response to selenium ion | 0.00356170431735566 |
| GO:0033598 | mammary gland epithelial cell proliferation | 0.00356170431735566 |
| GO:0033599 | regulation of mammary gland epithelial cell proliferation | 0.00356170431735566 |
| GO:0008539 | proteasome inhibitor activity | 0.00356170431735566 |
| GO:0043295 | glutathione binding | 0.00427398227263908 |
| GO:0008631 | induction of apoptosis by oxidative stress | 0.00474879929383486 |
| GO:0009650 | UV protection | 0.00610541935439425 |
| GO:0030503 | regulation of cell redox homeostasis | 0.00712267470585477 |
| GO:0043154 | negative regulation of caspase activity | 0.00712267470585477 |
| GO:0042744 | hydrogen peroxide catabolic process | 0.00771577659443147 |
| GO:0042743 | hydrogen peroxide metabolic process | 0.00771577659443147 |
| GO:0001836 | release of cytochrome c from mitochondria | 0.00771577659443147 |
| GO:0004602 | glutathione peroxidase activity | 0.0083782604577414 |
| GO:0006749 | glutathione metabolic process | 0.0083782604577414 |
| GO:0008637 | apoptotic mitochondrial changes | 0.0083782604577414 |
| GO:0017124 | SH3 domain binding | 0.0083782604577414 |
| GO:0042542 | response to hydrogen peroxide | 0.0083782604577414 |
| GO:0000302 | response to reactive oxygen species | 0.0106811811903355 |
| GO:0050678 | regulation of epithelial cell proliferation | 0.0111441033976822 |
| GO:0009411 | response to UV | 0.0111441033976822 |
| GO:0050673 | epithelial cell proliferation | 0.0111441033976822 |
| GO:0010038 | response to metal ion | 0.0111441033976822 |
| GO:0008629 | induction of apoptosis by intracellular signals | 0.0111441033976822 |
| GO:0010035 | response to inorganic substance | 0.0123917946099916 |
| GO:0006800 | oxygen and reactive oxygen species metabolic process | 0.0123917946099916 |
| GO:0060047 | heart contraction | 0.0123917946099916 |
| GO:0003015 | heart process | 0.0123917946099916 |
| GO:0008430 | selenium binding | 0.0127113856780267 |
| GO:0043281 | regulation of caspase activity | 0.0147255051928963 |
| GO:0040029 | regulation of gene expression, epigenetic | 0.0149003678103095 |
| GO:0004601 | peroxidase activity | 0.0149003678103095 |
| GO:0016684 | oxidoreductase activity, acting on peroxide as acceptor | 0.0149003678103095 |
| GO:0009416 | response to light stimulus | 0.0174643995027196 |
| GO:0006790 | sulfur metabolic process | 0.0175880982868606 |
| GO:0008632 | apoptotic program | 0.0175880982868606 |
| GO:0007005 | mitochondrion organization and biogenesis | 0.0175880982868606 |
| GO:0009314 | response to radiation | 0.0194166461393986 |
| GO:0045454 | cell redox homeostasis | 0.0202138906401953 |
| GO:0006979 | response to oxidative stress | 0.0218801128957829 |
| GO:0019904 | protein domain specific binding | 0.0225752112702164 |
| GO:0005681 | spliceosome | 0.0241013951022955 |
| GO:0008015 | blood circulation | 0.0264440662770201 |
| GO:0003013 | circulatory system process | 0.0264440662770201 |
| GO:0009628 | response to abiotic stimulus | 0.0266486946639436 |
| GO:0006916 | anti-apoptosis | 0.0268441119592487 |
| GO:0042277 | peptide binding | 0.0315119562790315 |
| GO:0006917 | induction of apoptosis | 0.0315119562790315 |
| GO:0012502 | induction of programmed cell death | 0.0315119562790315 |
| GO:0008380 | RNA splicing | 0.0320173688309457 |
| GO:0043066 | negative regulation of apoptosis | 0.0320173688309457 |
| GO:0043069 | negative regulation of programmed cell death | 0.0320173688309457 |
| GO:0043065 | positive regulation of apoptosis | 0.0345455564991135 |
| GO:0043068 | positive regulation of programmed cell death | 0.0345455564991135 |
| GO:0006397 | mRNA processing | 0.0358691419109499 |
| GO:0006732 | coenzyme metabolic process | 0.0371437391052508 |
| GO:0051336 | regulation of hydrolase activity | 0.0388762339987535 |
| GO:0016071 | mRNA metabolic process | 0.0419149300765837 |
| GO:0051186 | cofactor metabolic process | 0.0419149300765837 |
| GO:0019725 | cellular homeostasis | 0.0450273350297991 |
| GO:0004857 | enzyme inhibitor activity | 0.0473285241774172 |
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 | 1.91e-30 | 180 |
| mesodermal cell | 1.51e-27 | 119 |
| contractile cell | 3.58e-23 | 59 |
| somatic cell | 4.97e-23 | 591 |
| muscle precursor cell | 1.87e-20 | 57 |
| myoblast | 1.87e-20 | 57 |
| multi-potent skeletal muscle stem cell | 1.87e-20 | 57 |
| muscle cell | 2.42e-20 | 54 |
| electrically responsive cell | 9.40e-19 | 60 |
| electrically active cell | 9.40e-19 | 60 |
| smooth muscle cell | 2.94e-17 | 42 |
| smooth muscle myoblast | 2.94e-17 | 42 |
| vascular associated smooth muscle cell | 2.64e-14 | 32 |
| embryonic cell | 1.43e-12 | 248 |
| multi fate stem cell | 2.25e-12 | 430 |
| somatic stem cell | 1.46e-11 | 436 |
| meso-epithelial cell | 2.66e-11 | 44 |
| endothelial cell | 5.07e-11 | 35 |
| stem cell | 5.22e-11 | 444 |
| fibroblast | 5.60e-11 | 75 |
| animal cell | 9.26e-09 | 679 |
| eukaryotic cell | 9.26e-09 | 679 |
| lining cell | 4.52e-08 | 57 |
| barrier cell | 4.52e-08 | 57 |
| epithelial cell of nephron | 3.30e-07 | 16 |
| endothelial cell of vascular tree | 6.01e-07 | 24 |
| native cell | 7.85e-07 | 722 |
| cardiocyte | 9.10e-07 | 16 |
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.
