Ongoing and future developments at the Universal Protein Resource
By A. Morgat, Rolf Apweiler, Maria Jesus Martin, C. O’Donovan, Michele Magrane, Y. Alam-Faruque, R. Antunes, Daniel Barrell, B. Bely, M. Bingley and 115 more. 2010
703 citations recorded by the source corpus.
The primary mission of Universal Protein Resource (UniProt) is to support biological research by maintaining a stable, comprehensive, fully classified, richly and accurately annotated protein sequence knowledgebase, with extensive cross-references and querying interfaces freely accessible to the scientific community. UniProt is produced by the UniProt Consortium which consists of groups from the European Bioinformatics Institute (EBI), the Swiss Institute of Bioinformatics (SIB) and the Protein Information Resource (PIR). UniProt is comprised of four major components, each optimized for different uses: the UniProt Archive, the UniProt Knowledgebase, the UniProt Reference Clusters and the UniProt Metagenomic and Environmental Sequence Database. UniProt is updated and distributed every 4 weeks and can be accessed online for searches or download at http://www.uniprot.org.
Subfields: Molecular Biology, Spectroscopy
How researchers see this paper
The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.
In Molecular Biology
- Torsten Schwede
- Lorenza Bordoli
- Jüergen Cox
- Gabriel Studer
- Matthias Mann
- Christoph Schaab
- Andrew M. Waterhouse
- T. Geiger
In Spectroscopy
- Jüergen Cox
- Matthias Mann
- Christoph Schaab
- T. Geiger
- Gabriele Stoehr
- Matthew Meyerson
- Paul D. Thomas
- Sabine Schrimpf
Citations in the corpus
- ChEMBL: a large-scale bioactivity database for drug discovery (2011, background): “Protein targets are represented by primary accessions within the UniProt protein database (25), and organism targets are assigned NCBI taxonomy IDs and names.”
- SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information (2014, background): “Model building with SWISS-MODEL can be initiated from different starting information: In the simplest case, a protein amino acid sequence can be specified directly (raw one letter sequence or FASTA format) or by referring to its UniProt accession code, in which case SWISS-MODEL will automatically re”
- Tools for Predicting the Functional Impact of Nonsynonymous Genetic Variation (2016, background): “…and individual residues that bind metal ions, other cofactors, or ligands — can be identi fi ed from direct analysis of protein structures, or, more commonly, from prior analysis results that are captured in resources such as the Swiss-Prot database (Boeckmann et al. 2003; UniProt Consortium 2011).”
- Oncotator: cancer variant annotation tool (2015, methodology): “To this end, Oncotator can annotate genomic variants with protein-specific annotations derived from UniProt human protein sequence records (UniProt Consortium, 2011).”
- Multitask Matrix Completion for Learning Protein Interactions Across Diseases (2016, neutral): “The last row shows that each of our graphs is extremely sparse. a This is the number of ‘‘reviewed’’ proteins on UniProtKB from all strains in our data. b Density = (No. of positives + No. of negatives)/total number of possible edges.”
- PhosphoSitePlus: a comprehensive resource for investigating the structure and function of experimentally determined post-translational modifications in man and mouse (2011, methodology): “Basic protein descriptions include information parsed from UniPROT KB (24), and may include additional information from the literature.”