Reorganizing the protein space at the Universal Protein Resource (UniProt)
By The UniProt Consortium. 2011
1,169 citations recorded by the source corpus.
The mission of UniProt is to support biological research by providing a freely accessible, stable, comprehensive, fully classified, richly and accurately annotated protein sequence knowledgebase, with extensive cross-references and querying interfaces. 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. A key development at UniProt is the provision of complete, reference and representative proteomes. 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
- Burkhard Rost
- Debora Marks
- Christopher Sander
- Yang Zhang
- Zsuzsanna Dosztányi
- Thomas A. Hopf
- Faruck Morcos
- Yana Bromberg
In Spectroscopy
- Zsuzsanna Dosztányi
- Burkhard Rost
- Silvio C. E. Tosatto
- Peter Tompa
- J. Blanchard
- Terence Hwa
- Christopher Sander
- Mark Gerstein
Citations in the corpus
- Predicting Functional Effect of Human Missense Mutations Using PolyPhen-2 (2013, neutral): “The set of BLAST hits is filtered to retain hits that have: sequence identity to the input sequence in the range 30% to 94%, inclusively, and alignment with the query sequence not smaller than 75 residues in length.”
- Protein structure prediction from sequence variation (2012, background): “…selection, with functional constraints conserved over large evolutionary distances; second, the recent increase in the amount of available sequence information 61 ; and third, the recently honed mathematical ability to compute global (cooperative) rather than local (factorized) probability models.”
- Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes (2013, methodology): “For each 454 read, the best local alignment (high-scoring segment pair (HSP)) with known proteins was obtained by a first BLAST (B1; BLASTx) against the UniProt database release April 2011 (UniProt Consortium, 2012).”
- Interactome3D: adding structural details to protein networks (2013, methodology): “To avoid duplicated references, proteins with 100% sequence identity are merged using the Uniref100 database 52 .”
- An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge (2014, methodology): “Use of reference datasets (1000 Genomes, dbSNP, Hap-Map, NHLBI Go ESP and OMNI), and annotation databases (OMIM, Uniprot, SeattleSeq, SNPedia, ClinVar, PharmGKB, Human Gene Mutation Database, dbNSFP and in-house annotations) revealed considerable consensus and uniformity across entries.”