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The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains
Protein structural domains have been less studied than full-length proteins in terms of ontology annotations. The dcGO database has filled this gap by providing mappings from protein domains to ontologies. The dcGO update in 2023 extends annotations for protein domains of multiple definitions (SCOP,...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7614987/ https://www.ncbi.nlm.nih.gov/pubmed/37061086 http://dx.doi.org/10.1016/j.jmb.2023.168093 |
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author | Bao, Chaohui Lu, Chang Lin, James Gough, Julian Fang, Hai |
author_facet | Bao, Chaohui Lu, Chang Lin, James Gough, Julian Fang, Hai |
author_sort | Bao, Chaohui |
collection | PubMed |
description | Protein structural domains have been less studied than full-length proteins in terms of ontology annotations. The dcGO database has filled this gap by providing mappings from protein domains to ontologies. The dcGO update in 2023 extends annotations for protein domains of multiple definitions (SCOP, Pfam, and InterPro) with commonly used ontologies that are categorised into functions, phenotypes, diseases, drugs, pathways, regulators, and hallmarks. This update adds new dimensions to the utility of both ontology and protein domain resources. A newly designed website at http://www.protdomainonto.pro/dcGO offers a more centralised and user-friendly way to access the dcGO database, with enhanced faceted search returning term- and domain-specific information pages. Users can navigate both ontology terms and annotated domains through improved ontology hierarchy browsing. A newly added facility enables domain-based ontology enrichment analysis. |
format | Online Article Text |
id | pubmed-7614987 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
record_format | MEDLINE/PubMed |
spelling | pubmed-76149872023-08-29 The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains Bao, Chaohui Lu, Chang Lin, James Gough, Julian Fang, Hai J Mol Biol Article Protein structural domains have been less studied than full-length proteins in terms of ontology annotations. The dcGO database has filled this gap by providing mappings from protein domains to ontologies. The dcGO update in 2023 extends annotations for protein domains of multiple definitions (SCOP, Pfam, and InterPro) with commonly used ontologies that are categorised into functions, phenotypes, diseases, drugs, pathways, regulators, and hallmarks. This update adds new dimensions to the utility of both ontology and protein domain resources. A newly designed website at http://www.protdomainonto.pro/dcGO offers a more centralised and user-friendly way to access the dcGO database, with enhanced faceted search returning term- and domain-specific information pages. Users can navigate both ontology terms and annotated domains through improved ontology hierarchy browsing. A newly added facility enables domain-based ontology enrichment analysis. 2023-07-15 2023-04-13 /pmc/articles/PMC7614987/ /pubmed/37061086 http://dx.doi.org/10.1016/j.jmb.2023.168093 Text en https://creativecommons.org/licenses/by/4.0/This work is licensed under a BY 4.0 (https://creativecommons.org/licenses/by/4.0/) International license. |
spellingShingle | Article Bao, Chaohui Lu, Chang Lin, James Gough, Julian Fang, Hai The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains |
title | The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains |
title_full | The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains |
title_fullStr | The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains |
title_full_unstemmed | The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains |
title_short | The dcGO Domain-Centric Ontology Database in 2023: New Website and Extended Annotations for Protein Structural Domains |
title_sort | dcgo domain-centric ontology database in 2023: new website and extended annotations for protein structural domains |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7614987/ https://www.ncbi.nlm.nih.gov/pubmed/37061086 http://dx.doi.org/10.1016/j.jmb.2023.168093 |
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