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UniProt Knowledgebase: a hub of integrated protein data

https://doi.org/10.1093/database/bar009
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/047001153xopenalex-snapshot
Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics
inferredcites →https://doi.org/10.1002/047001153x.g403314openalex-snapshot
Large‐scale, classification‐driven, rule‐based functional annotation of proteins
inferredcites →https://doi.org/10.1002/pmic.200300721openalex-snapshot
The International Protein Index: An integrated database for proteomics experiments
inferredcites →https://doi.org/10.1002/pmic.200900402openalex-snapshot
A guide to the Proteomics Identifications Database proteomics data repository
inferredcites →https://doi.org/10.1006/jmbi.2000.4042openalex-snapshot
T-coffee: a novel method for fast and accurate multiple sequence alignment 1 1Edited by J. Thornton
inferredcites →https://doi.org/10.1016/s1476-9271(02)00094-4openalex-snapshot
Automated annotation of microbial proteomes in SWISS-PROT
inferredcites →https://doi.org/10.1038/75556openalex-snapshot
Gene Ontology: tool for the unification of biology
inferredcites →https://doi.org/10.1093/bioinformatics/15.3.228openalex-snapshot
A novel method for automatic functional annotation of proteins.
inferredcites →https://doi.org/10.1093/bioinformatics/17.10.920openalex-snapshot
Automatic rule generation for protein annotation with the C4.5 data mining algorithm applied on SWISS-PROT
inferredcites →https://doi.org/10.1093/bioinformatics/bth191openalex-snapshot
UniProt archive
inferredcites →https://doi.org/10.1093/bioinformatics/bti506openalex-snapshot
Dasty and UniProt DAS: a perfect pair for protein feature visualization
inferredcites →https://doi.org/10.1093/bioinformatics/btn122openalex-snapshot
UniProtJAPI: a remote API for accessing UniProt data
inferredcites →https://doi.org/10.1093/bioinformatics/btn387openalex-snapshot
Dasty2, an Ajax protein DAS client
inferredcites →https://doi.org/10.1093/nar/22.22.4673openalex-snapshot
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
inferredcites →https://doi.org/10.1093/nar/25.17.3389openalex-snapshot
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
inferredcites →https://doi.org/10.1093/nar/gkh340openalex-snapshot
MUSCLE: multiple sequence alignment with high accuracy and high throughput
inferredcites →https://doi.org/10.1093/nar/gkm987openalex-snapshot
The vertebrate genome annotation (Vega) database
inferredcites →https://doi.org/10.1093/nar/gkn721openalex-snapshot
NCBI Reference Sequences: current status, policy and new initiatives
inferredcites →https://doi.org/10.1093/nar/gkn785openalex-snapshot
InterPro: the integrative protein signature database
inferredcites →https://doi.org/10.1093/nar/gkn788openalex-snapshot
FlyBase: enhancing Drosophila Gene Ontology annotations
inferredcites →https://doi.org/10.1093/nar/gkn803openalex-snapshot
The GOA database in 2009--an integrated Gene Ontology Annotation resource
inferredcites →https://doi.org/10.1093/nar/gkp1018openalex-snapshot
The Gene Ontology in 2010: extensions and refinements
inferredcites →https://doi.org/10.1093/nar/gkp1024openalex-snapshot
GenBank
inferredcites →https://doi.org/10.1093/nar/gkp847openalex-snapshot
DDBJ launches a new archive database with analytical tools for next-generation sequence data
inferredcites →https://doi.org/10.1093/nar/gkp878openalex-snapshot
The IntAct molecular interaction database in 2010
inferredcites →https://doi.org/10.1093/nar/gkp916openalex-snapshot
PDBe: Protein Data Bank in Europe
inferredcites →https://doi.org/10.1093/nar/gkp972openalex-snapshot
Ensembl's 10th year
inferredcites →https://doi.org/10.1093/nar/gkp998openalex-snapshot
Improvements to services at the European Nucleotide Archive
inferredcites →https://doi.org/10.1093/nar/gkq1008openalex-snapshot
The Mouse Genome Database (MGD): premier model organism resource for mammalian genomics and genetics
inferredcites →https://doi.org/10.1093/nar/gkq892openalex-snapshot
genenames.org: the HGNC resources in 2011
inferredcites →https://doi.org/10.1101/gr.073585.107openalex-snapshot
EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates
inferredcites →https://doi.org/10.1186/1471-2105-10-136openalex-snapshot
Infrastructure for the life sciences: design and implementation of the UniProt website
inferredcites →https://doi.org/10.1186/1471-2105-2-7openalex-snapshot
The Distributed Annotation System
inferredcites →https://doi.org/10.1186/1471-2105-9-312openalex-snapshot
MSDmotif: exploring protein sites and motifs
inferredcites →https://doi.org/10.1186/1471-2164-10-22openalex-snapshot
BioMart – biological queries made easy
inferredcites →https://doi.org/10.1371/journal.pcbi.0030123openalex-snapshot
Recent Evolutions of Multiple Sequence Alignment Algorithms
inferredcites →https://doi.org/10.1517/14622416.3.1.131openalex-snapshot
Recent progress in multiple sequence alignment: a survey
inferredcites →https://doi.org/10.21775/cimb.003.047openalex-snapshot
SWISS-PROT: Connecting Biomolecular Knowledge Via a Protein Database

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Incoming claims: where this work appears in other papers’ reference lists and arguments.

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inferred← citeshttps://doi.org/10.1002/pro.4266openalex-snapshot
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Computational Prediction of B Cell Epitopes from Antigen Sequences
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Integrating Proteomics Profiling Data Sets: A Network Perspective
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MG-RAST, a Metagenomics Service for Analysis of Microbial Community Structure and Function
inferred← citeshttps://doi.org/10.1007/978-1-4939-3572-7_3openalex-snapshot
The MIntAct Project and Molecular Interaction Databases
inferred← citeshttps://doi.org/10.1007/978-1-4939-3816-2_9openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-6424-6_5openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-6682-0_18openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-6783-4_2openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-7528-0_1openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-7553-2_3openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-7804-5_16openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-1-4939-9102-0_13openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-3-030-19318-8_8openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-3-030-91039-6_3openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-3-319-10984-8_1openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-3-319-12637-1_56openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/978-3-319-21233-3_6openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00203-015-1147-7openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00203-021-02543-9openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00239-012-9533-0openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00249-016-1151-0openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00253-014-6244-zopenalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00253-018-9061-yopenalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00253-025-13556-5openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00262-014-1627-7openalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00299-024-03259-yopenalex-snapshot
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inferred← citeshttps://doi.org/10.1007/s00439-017-1804-9openalex-snapshot
A rare variant in the FHL1 gene associated with X-linked recessive hypoparathyroidism
inferred← citeshttps://doi.org/10.1007/s00449-018-1900-9openalex-snapshot
An enhanced genome-scale metabolic reconstruction of Streptomyces clavuligerus identifies novel strain improvement strategies
inferred← citeshttps://doi.org/10.1007/s00500-018-3154-5openalex-snapshot
ARD-PRED: an in silico tool for predicting age-related-disorder-associated proteins
inferred← citeshttps://doi.org/10.1007/s00726-012-1228-8openalex-snapshot
Non-canonical interactions of porphyrins in porphyrin-containing proteins
inferred← citeshttps://doi.org/10.1007/s00726-017-2487-1openalex-snapshot
Evolutionary relationships between seryl-histidine dipeptide and modern serine proteases from the analysis based on mass spectrometry and bioinformatics
inferred← citeshttps://doi.org/10.1007/s00792-017-0968-5openalex-snapshot
Isolation and complete genome sequence of Halorientalis hydrocarbonoclasticus sp. nov., a hydrocarbon-degrading haloarchaeon
inferred← citeshttps://doi.org/10.1007/s00894-014-2247-zopenalex-snapshot
Molecular dynamics, dynamic site mapping, and highthroughput virtual screening on leptin and the Ob receptor as anti-obesity target
inferred← citeshttps://doi.org/10.1007/s00894-014-2348-8openalex-snapshot
Induced fit docking, pharmacophore modeling, and molecular dynamic simulations on thiazolidinedione derivatives to explore key interactions with Tyr48 in polyol pathway
inferred← citeshttps://doi.org/10.1007/s00894-015-2799-6openalex-snapshot
A user-friendly web portal for analyzing conformational changes in structures of Mycobacterium tuberculosis
inferred← citeshttps://doi.org/10.1007/s00894-016-3103-0openalex-snapshot
3D structure prediction of histone acetyltransferase proteins of the MYST family and their interactome in Arabidopsis thaliana
inferred← citeshttps://doi.org/10.1007/s10059-013-2347-0openalex-snapshot
Massively Parallel Sequencing of Chikso (Korean Brindle Cattle) to Discover Genome-Wide SNPs and InDels
inferred← citeshttps://doi.org/10.1007/s10126-021-10064-1openalex-snapshot
A Leap Forward Towards Unraveling Newer Anti-infective Agents from an Unconventional Source: a Draft Genome Sequence Illuminating the Future Promise of Marine Heterotrophic Bacillus sp. Against Drug-Resistant Pathogens
inferred← citeshttps://doi.org/10.1007/s10142-024-01470-4openalex-snapshot
Identification of lncRNAs regulating seed traits in Brassica juncea and development of a comprehensive seed omics database
inferred← citeshttps://doi.org/10.1007/s10295-017-1946-8openalex-snapshot
Model-based biotechnological potential analysis of Kluyveromyces marxianus central metabolism
inferred← citeshttps://doi.org/10.1007/s10482-018-1197-3openalex-snapshot
Genome sequencing of Aureobasidium pullulans P25 and overexpression of a glucose oxidase gene for hyper-production of Ca2+-gluconic acid
inferred← citeshttps://doi.org/10.1007/s10482-024-02009-0openalex-snapshot
Roseobacter weihaiensis sp. nov., a cellulose-degrading bacterium isolated from intestinal content of Nipponacmea schrenckii collected from golden beach in Weihai, China
inferred← citeshttps://doi.org/10.1007/s10495-018-1442-2openalex-snapshot
Effect of phosphorylation and single nucleotide polymorphisms on caspase substrates processing
inferred← citeshttps://doi.org/10.1007/s10725-014-9919-7openalex-snapshot
Kiwi fruit PMEI inhibits PME activity, modulates root elongation and induces pollen tube burst in Arabidopsis thaliana
inferred← citeshttps://doi.org/10.1007/s10822-011-9489-yopenalex-snapshot
A computational analysis of the binding mode of closantel as inhibitor of the Onchocerca volvulus chitinase: insights on macrofilaricidal drug design
inferred← citeshttps://doi.org/10.1007/s10822-015-9889-5openalex-snapshot
Unraveling the distinctive features of hemorrhagic and non-hemorrhagic snake venom metalloproteinases using molecular simulations
inferred← citeshttps://doi.org/10.1007/s10930-018-9804-8openalex-snapshot
Genome Wide Analysis of WD40 Proteins in Saccharomyces cerevisiae and Their Orthologs in Candida albicans
inferred← citeshttps://doi.org/10.1007/s10969-012-9125-7openalex-snapshot
KB-Rank: efficient protein structure and functional annotation identification via text query
inferred← citeshttps://doi.org/10.1007/s11030-024-11082-6openalex-snapshot
Immunoinformatic based designing of highly immunogenic multi-epitope subunit vaccines to stimulate an adaptive immune response against Junin virus
inferred← citeshttps://doi.org/10.1007/s11033-017-4135-yopenalex-snapshot
Comparative transcriptomics uncovers differences in photoautotrophic versus photoheterotrophic modes of nutrition in relation to secondary metabolites biosynthesis in Swertia chirayita
inferred← citeshttps://doi.org/10.1007/s11033-019-04726-6openalex-snapshot
Leptospiral phosphatidylinositol-specific phospholipase C: a novel conserved antigen for the definitive diagnosis of Leptospirosis
inferred← citeshttps://doi.org/10.1007/s11224-022-01949-5openalex-snapshot
A pragmatic pharmacophore informatics strategy to discover new potent inhibitors against pim-3
inferred← citeshttps://doi.org/10.1007/s11240-020-01777-7openalex-snapshot
Proteome analysis of leaf, stem and callus in Viscum album and identification of lectins and viscotoxins with bioactive properties
inferred← citeshttps://doi.org/10.1007/s11262-014-1101-9openalex-snapshot
Modelling the structure of full-length Epstein–Barr virus nuclear antigen 1
inferred← citeshttps://doi.org/10.1007/s11295-015-0931-5openalex-snapshot
A standard nomenclature for gene designation in the Rosaceae
inferred← citeshttps://doi.org/10.1007/s11693-015-9164-zopenalex-snapshot
CARDIO-PRED: an in silico tool for predicting cardiovascular-disorder associated proteins
inferred← citeshttps://doi.org/10.1007/s11756-024-01713-6openalex-snapshot
Comparative protein structural analyses of α-synuclein linked pathogenic variants reveal the role of N-terminally located critical region in Parkinson’s disease pathogenesis
inferred← citeshttps://doi.org/10.1007/s12013-014-0153-8openalex-snapshot
Mutations in microRNA Binding Sites of CEP Genes Involved in Cancer
inferred← citeshttps://doi.org/10.1007/s12013-017-0791-8openalex-snapshot
Analysis of Species-Selectivity of Human, Mouse and Rat Cytochrome P450 1A and 2B Subfamily Enzymes using Molecular Modeling, Docking and Dynamics Simulations
inferred← citeshttps://doi.org/10.1007/s12026-016-8890-yopenalex-snapshot
HPV and systemic lupus erythematosus: a mosaic of potential crossreactions
inferred← citeshttps://doi.org/10.1007/s12035-013-8489-4openalex-snapshot
Integrating Pathways of Parkinson's Disease in a Molecular Interaction Map
inferred← citeshttps://doi.org/10.1007/s12038-023-00395-7openalex-snapshot
A novel search engine for proteins involved in Notch crosstalk signaling pathways
inferred← citeshttps://doi.org/10.1007/s12042-013-9130-4openalex-snapshot
Next-Generation Sequencing-Based Transcriptional Profiling of Sacred Lotus “China Antique”
inferred← citeshttps://doi.org/10.1007/s12192-020-01145-6openalex-snapshot
SARS-CoV-2 and Guillain-Barré syndrome: molecular mimicry with human heat shock proteins as potential pathogenic mechanism
inferred← citeshttps://doi.org/10.1007/s12298-021-01059-2openalex-snapshot
Genome-wide in silico analysis of long intergenic non-coding RNAs from rice peduncles at the heading stage
inferred← citeshttps://doi.org/10.1007/s12539-013-0180-yopenalex-snapshot
Uridine monophosphate kinase as potential target for tuberculosis: From target to lead identification
inferred← citeshttps://doi.org/10.1007/s12539-018-0299-yopenalex-snapshot
Subtractive Genomics, Molecular Docking and Molecular Dynamics Simulation Revealed LpxC as a Potential Drug Target Against Multi-Drug Resistant Klebsiella pneumoniae
inferred← citeshttps://doi.org/10.1007/s12551-012-0086-7openalex-snapshot
PI2PE: a suite of web servers for predictions ranging from protein structure to binding kinetics
inferred← citeshttps://doi.org/10.1007/s13205-017-0924-1openalex-snapshot
Simultaneous saccharification and viscosity reduction of cassava pulp using a multi-component starch- and cell-wall degrading enzyme for bioethanol production
inferred← citeshttps://doi.org/10.1007/s13213-019-01531-1openalex-snapshot
Genome sequencing of a yeast-like fungal strain P6, a novel species of Aureobasidium spp.: insights into its taxonomy, evolution, and biotechnological potentials
inferred← citeshttps://doi.org/10.1007/s13238-012-2914-8openalex-snapshot
Functional annotation from the genome sequence of the giant panda
inferred← citeshttps://doi.org/10.1007/s13353-014-0265-2openalex-snapshot
Overview of computational vaccinology: vaccine development through information technology
inferred← citeshttps://doi.org/10.1007/s13353-024-00884-xopenalex-snapshot
Identification of high-risk non-synonymous SNPs (nsSNPs) in DNAH1 and DNAH17 genes associated with male infertility: a bioinformatics analysis
inferred← citeshttps://doi.org/10.1007/s13361-011-0323-5openalex-snapshot
Online Electrospray Ionization Mass Spectrometric Monitoring of Protease-Catalyzed Reactions in Real Time
inferred← citeshttps://doi.org/10.1007/s13721-016-0127-4openalex-snapshot
Epitope prediction for MSP119 protein in Plasmodium yeolii using computational approaches
inferred← citeshttps://doi.org/10.1007/s13721-025-00531-3openalex-snapshot
Molecular insights and risk estimating computational database for Parkinson’s disease (PDASD)
inferred← citeshttps://doi.org/10.1007/s40203-018-0048-2openalex-snapshot
Identification of potential drug targets and inhibitor of the pathogenic bacteria Shigella flexneri 2a through the subtractive genomic approach
inferred← citeshttps://doi.org/10.1007/s40203-025-00370-0openalex-snapshot
Molecular modeling to design a multiepitope vaccine against emerging tick-borne Yezo virus and its validation through biophysics techniques
inferred← citeshttps://doi.org/10.1007/s40484-015-0045-yopenalex-snapshot
Determination of specificity influencing residues for key transcription factor families
inferred← citeshttps://doi.org/10.1007/s40610-022-00148-9openalex-snapshot
Significance of Choline Acetyltransferase Enzyme in Tackling Neurodegenerative Diseases
inferred← citeshttps://doi.org/10.1007/s42161-018-0126-7openalex-snapshot
Bioinformatic analysis of the complete genome sequence of Pectobacterium carotovorum subsp. brasiliense BZA12 and candidate effector screening
inferred← citeshttps://doi.org/10.1007/s42485-024-00144-wopenalex-snapshot
A review on available proteomic databases, annotation techniques and data projects important in male reproductive physiology research
inferred← citeshttps://doi.org/10.1007/s44371-026-00772-9openalex-snapshot
Rational design and insilico evaluation of 2-amino-5-methylthiazole derivatives as potent EGFR inhibitors for colorectal cancer therapy
inferred← citeshttps://doi.org/10.1016/b978-0-08-100095-3.00007-xopenalex-snapshot
From Network Inference to the Study of Human DiseasesaaThe work is partially supported by the National Research Foundation of Luxembourg (AFR 9139104).
inferred← citeshttps://doi.org/10.1016/b978-0-08-100095-3.09995-9openalex-snapshot
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Direct glycan structure determination of intact N-linked glycopeptides by low-energy collision-induced dissociation tandem mass spectrometry and predicted spectral library searching
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Evaluation of cardiovascular system state by urine proteome after manned space flight
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Genome-wide differential expression profiling in wild and cultivar genotypes of cardamom reveals regulation of key pathways in plant growth and development
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REVEL: An Ensemble Method for Predicting the Pathogenicity of Rare Missense Variants
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The extremely large chloroplast genome of the green alga Haematococcus pluvialis: Genome structure, and comparative analysis
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Solubilisation of protein fractions induced by Escherichia coli phytase and its effects on in vitro fish digestion of plant proteins
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From protein biomarkers to proteomics in dementia with Lewy Bodies
inferred← citeshttps://doi.org/10.1016/j.asoc.2025.113795openalex-snapshot
Ribonucleic-Acid protein interaction prediction based on deep learning: A comprehensive survey
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