ArticleNucleic acids research2014
Protein Ontology: a controlled structured network of protein entities.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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Who cites it
49 citing papers in PubMed.
- Challenges and Vision for Standardization of Biopolymer Data Sets for Machine Learning.Biomacromolecules · 2026Review
- Functional implications of glycans and their curation: insights from the workshop held at the 16th Annual International Biocuration Conference in Padua, Italy.Database : the journal of biological databases and curation · 2024Article
- Expanding the coverage of regulons from high-confidence prior knowledge for accurate estimation of transcription factor activities.Nucleic acids research · 2023Article
- Precision omics data integration and analysis with interoperable ontologies and their application for COVID-19 research.Briefings in functional genomics · 2021Article
- Ontology-guided segmentation and object identification for developmental mouse lung immunofluorescent images.BMC bioinformatics · 2021Article
- Ontological modeling and analysis of experimentally or clinically verified drugs against coronavirus infection.Scientific data · 2021Article
- Ontological Organization and Bioinformatic Analysis of Adverse Drug Reactions From Package Inserts: Development and Usability Study.Journal of medical Internet research · 2020Article
- OHMI: the ontology of host-microbiome interactions.Journal of biomedical semantics · 2019Article
- LION LBD: a literature-based discovery system for cancer biology.Bioinformatics (Oxford, England) · 2019Article
- The cell line ontology-based representation, integration and analysis of cell lines used in China.BMC bioinformatics · 2019Article
- OSCI: standardized stem cell ontology representation and use cases for stem cell investigation.BMC bioinformatics · 2019Article
- Cells in ExperimentaL Life Sciences (CELLS-2018): capturing the knowledge of normal and diseased cells with ontologies.BMC bioinformatics · 2019Article
- Data Management in Computational Systems Biology: Exploring Standards, Tools, Databases, and Packaging Best Practices.Methods in molecular biology (Clifton, N.J.) · 2019Article
- Automatic gene annotation using GO terms from cellular component domain.BMC medical informatics and decision making · 2018Article
- ImmPort, toward repurposing of open access immunological assay data for translational and clinical research.Scientific data · 2018Article
- Discovery of Emerging Design Patterns in Ontologies Using Tree Mining.Semantic web · 2018Article
- Identification of errors in the IEDB using ontologies.Database : the journal of biological databases and curation · 2018Article
- Creating a Structured AOP Knowledgebase via Ontology-Based Annotations.Applied in vitro toxicology · 2017Article
- Drug target ontology to classify and integrate drug discovery data.Journal of biomedical semantics · 2017Article
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26 authors.
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Abstract
The Protein Ontology (PRO; http://proconsortium.org) formally defines protein entities and explicitly represents their major forms and interrelations. Protein entities represented in PRO corresponding to single amino acid chains are categorized by level of specificity into family, gene, sequence and modification metaclasses, and there is a separate metaclass for protein complexes. All metaclasses also have organism-specific derivatives. PRO complements established sequence databases such as UniProtKB, and interoperates with other biomedical and biological ontologies such as the Gene Ontology (GO). PRO relates to UniProtKB in that PRO's organism-specific classes of proteins encoded by a specific gene correspond to entities documented in UniProtKB entries. PRO relates to the GO in that PRO's representations of organism-specific protein complexes are subclasses of the organism-agnostic protein complex terms in the GO Cellular Component Ontology. The past few years have seen growth and changes to the PRO, as well as new points of access to the data and new applications of PRO in immunology and proteomics. Here we describe some of these developments.
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