Abstract
The Proteins API provides searching and programmatic access to protein and associated genomics data such as curated protein sequence positional annotations from UniProtKB, as well as mapped variation and proteomics data from large scale data sources (LSS). Using the coordinates service, researchers are able to retrieve the genomic sequence coordinates for proteins in UniProtKB. This, the LSS genomics and proteomics data for UniProt proteins is programmatically only available through this service. A Swagger UI has been implemented to provide documentation, an interface for users, with little or no programming experience, to ‘talk’ to the services to quickly and easily formulate queries with the services and obtain dynamically generated source code for popular programming languages, such as Java, Perl, Python and Ruby. Search results are returned as standard JSON, XML or GFF data objects. The Proteins API is a scalable, reliable, fast, easy to use RESTful services that provides a broad protein information resource for users to ask questions based upon their field of expertise and allowing them to gain an integrated overview of protein annotations available to aid their knowledge gain on proteins in biological processes. The Proteins API is available at (http://www.ebi.ac.uk/proteins/api/doc).
Highlights
Discovering and understanding biological processes and diseases can be enormously cumbersome, requiring the integration and analysis of a large number of observations from world-wide produced experimental data and information collected and curated in biological resources; having access to resources that collate and interpret biological data as meaningful meta information is essential for the scientific discovery process.The Universal Protein Resource (UniProt) [1] is a comprehensive resource for protein sequence and annotation data
The UniProt Knowledgebase (UniProtKB) annotations provides detailed sequence positional functional information of protein entries along with cross-references to over 150 databases acting as a central hub of protein information
UniProt collaborates with other bioinformatics resources, such as genomics resources Ensembl [2] and ClinVar [3] and proteomics resources PRIDE [4], PeptideAtlas [5,6] and MaxQB [7] to provide mappings between the resources and the large scale experimental data sets they provide
Summary
Discovering and understanding biological processes and diseases can be enormously cumbersome, requiring the integration and analysis of a large number of observations from world-wide produced experimental data and information collected and curated in biological resources; having access to resources that collate and interpret biological data as meaningful meta information is essential for the scientific discovery process.The Universal Protein Resource (UniProt) [1] is a comprehensive resource for protein sequence and annotation data. We have developed the Proteins API, a REST web service, to provide programmatic access to protein sequence information and additional resources such as genomic coordinates mapping, antibody antigen sequences and mapped proteomics sequencing peptides; to enable researchers to visualize and integrate a broader range of biological data in to their analyses.
Sign-in/Register to view highlights & summary Sign-in/Register to access full text options 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
