Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape
Aim. To evaluate the functional annotation of genes associated with rheumatoid arthritis with different parameters of the ClueGO Cytoscape tool.Materials and methods. Genes of susceptibility to rheumatoid arthritis were extracted from publicly available database GWAS (catalog of associations of sing...
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| Format: | Article |
| Language: | English |
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Siberian State Medical University (Tomsk)
2020-10-01
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| Series: | Бюллетень сибирской медицины |
| Subjects: | |
| Online Access: | https://bulletin.ssmu.ru/jour/article/view/2991 |
| _version_ | 1797872857178439680 |
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| author | N. Yu. Chasovskikh |
| author_facet | N. Yu. Chasovskikh |
| author_sort | N. Yu. Chasovskikh |
| collection | DOAJ |
| description | Aim. To evaluate the functional annotation of genes associated with rheumatoid arthritis with different parameters of the ClueGO Cytoscape tool.Materials and methods. Genes of susceptibility to rheumatoid arthritis were extracted from publicly available database GWAS (catalog of associations of single nucleotide polymorphisms with diseases). The Gene Ontology (GO), the functional annotation of genes, was performed using Cytoscape ClueGO. The features of the functional annotation using the plugin ClueGO Cytoscape were analyzed. Results. Depending on the initial parameters specified in the plugin, the grouping of terms according to the gene ontology was carried out with a different degree of generalization. A smaller minimum number of genes in a group allows to form a larger number of groups, which makes it possible to obtain more detailed functional characteristics.Conclusion. The results obtained with different grouping options can be useful for further studies of genetic mechanisms of rheumatoid arthritis. |
| first_indexed | 2024-04-10T01:05:44Z |
| format | Article |
| id | doaj.art-dce1734681d648f990c14e037e4bb185 |
| institution | Directory Open Access Journal |
| issn | 1682-0363 1819-3684 |
| language | English |
| last_indexed | 2024-04-10T01:05:44Z |
| publishDate | 2020-10-01 |
| publisher | Siberian State Medical University (Tomsk) |
| record_format | Article |
| series | Бюллетень сибирской медицины |
| spelling | doaj.art-dce1734681d648f990c14e037e4bb1852023-03-13T09:58:26ZengSiberian State Medical University (Tomsk)Бюллетень сибирской медицины1682-03631819-36842020-10-0119310110410.20538/1682-0363-2020-3-101-1041652Features of functional annotation of rheumatoid arthritis susceptibility genes by CytoscapeN. Yu. Chasovskikh0Сибирский государственный медицинский университет (СибГМУ)Aim. To evaluate the functional annotation of genes associated with rheumatoid arthritis with different parameters of the ClueGO Cytoscape tool.Materials and methods. Genes of susceptibility to rheumatoid arthritis were extracted from publicly available database GWAS (catalog of associations of single nucleotide polymorphisms with diseases). The Gene Ontology (GO), the functional annotation of genes, was performed using Cytoscape ClueGO. The features of the functional annotation using the plugin ClueGO Cytoscape were analyzed. Results. Depending on the initial parameters specified in the plugin, the grouping of terms according to the gene ontology was carried out with a different degree of generalization. A smaller minimum number of genes in a group allows to form a larger number of groups, which makes it possible to obtain more detailed functional characteristics.Conclusion. The results obtained with different grouping options can be useful for further studies of genetic mechanisms of rheumatoid arthritis.https://bulletin.ssmu.ru/jour/article/view/2991функциональная аннотация геновревматоидный артритgwascytoscape |
| spellingShingle | N. Yu. Chasovskikh Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape Бюллетень сибирской медицины функциональная аннотация генов ревматоидный артрит gwas cytoscape |
| title | Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape |
| title_full | Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape |
| title_fullStr | Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape |
| title_full_unstemmed | Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape |
| title_short | Features of functional annotation of rheumatoid arthritis susceptibility genes by Cytoscape |
| title_sort | features of functional annotation of rheumatoid arthritis susceptibility genes by cytoscape |
| topic | функциональная аннотация генов ревматоидный артрит gwas cytoscape |
| url | https://bulletin.ssmu.ru/jour/article/view/2991 |
| work_keys_str_mv | AT nyuchasovskikh featuresoffunctionalannotationofrheumatoidarthritissusceptibilitygenesbycytoscape |