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Author Details

Andrew R Jones
Institute of Systems, University of Liverpool
2003
114
33
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36074795Is DIA proteomics data FAIR? Current data sharing practices, available bioinformatics infrastructure and recommendations for the future.Proteomics2023
36074795Is DIA proteomics data FAIR? Current data sharing practices, available bioinformatics infrastructure and recommendations for the future.Proteomics2023
36656904TriTrypDB: An integrated functional genomics resource for kinetoplastida.PLoS Negl Trop Dis2023
36577097Integrated View of Baseline Protein Expression in Human Tissues.J Proteome Res2023
36626722Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work.J Proteome Res2023
37099386Assessing Multiple Evidence Streams to Decide on Confidence for Identification of Post-Translational Modifications, within and Across Data Sets.J Proteome Res2023
37099386Assessing Multiple Evidence Streams to Decide on Confidence for Identification of Post-Translational Modifications, within and Across Data Sets.J Proteome Res2023
36656904TriTrypDB: An integrated functional genomics resource for kinetoplastida.PLoS Negl Trop Dis2023
36626722Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work.J Proteome Res2023
36577097Integrated View of Baseline Protein Expression in Human Tissues.J Proteome Res2023
36152781The INSR/AKT/mTOR pathway regulates the pace of myogenesis in a syndecan-3-dependent manner.Matrix Biol2022
35714157Integrated view and comparative analysis of baseline protein expression in mouse and rat tissues.PLoS Comput Biol2022
35640880Method for Independent Estimation of the False Localization Rate for Phosphoproteomics.J Proteome Res2022
36152781The INSR/AKT/mTOR pathway regulates the pace of myogenesis in a syndecan-3-dependent manner.Matrix Biol2022
36206355Antigen-specific depletion of CD4<sup>+</sup> T cells by CAR T cells reveals distinct roles of higher- and lower-affinity TCRs during autoimmunity.Sci Immunol2022
35640880Method for Independent Estimation of the False Localization Rate for Phosphoproteomics.J Proteome Res2022
35714157Integrated view and comparative analysis of baseline protein expression in mouse and rat tissues.PLoS Comput Biol2022
36206355Antigen-specific depletion of CD4<sup>+</sup> T cells by CAR T cells reveals distinct roles of higher- and lower-affinity TCRs during autoimmunity.Sci Immunol2022
32864978mzMLb: A Future-Proof Raw Mass Spectrometry Data Format Based on Standards-Compliant mzML and Optimized for Speed and Storage Requirements.J Proteome Res2021
33560295An OMICs-based meta-analysis to support infection state stratification.Bioinformatics2021
34196671MHCVision: estimation of global and local false discovery rate for MHC class I peptide binding prediction.Bioinformatics2021
33717077A Proteome-Wide Immunoinformatics Tool to Accelerate T-Cell Epitope Discovery and Vaccine Design in the Context of Emerging Infectious Diseases: An Ethnicity-Oriented Approach.Front Immunol2021
33755549A snapshot of human leukocyte antigen (HLA) diversity using data from the Allele Frequency Net Database.Hum Immunol2021
33710902lcmsWorld: High-Performance 3D Visualization Software for Mass Spectrometry.J Proteome Res2021
32864978mzMLb: A Future-Proof Raw Mass Spectrometry Data Format Based on Standards-Compliant mzML and Optimized for Speed and Storage Requirements.J Proteome Res2021
33717077A Proteome-Wide Immunoinformatics Tool to Accelerate T-Cell Epitope Discovery and Vaccine Design in the Context of Emerging Infectious Diseases: An Ethnicity-Oriented Approach.Front Immunol2021
33710902lcmsWorld: High-Performance 3D Visualization Software for Mass Spectrometry.J Proteome Res2021
33755549A snapshot of human leukocyte antigen (HLA) diversity using data from the Allele Frequency Net Database.Hum Immunol2021
33560295An OMICs-based meta-analysis to support infection state stratification.Bioinformatics2021
34196671MHCVision: estimation of global and local false discovery rate for MHC class I peptide binding prediction.Bioinformatics2021
32501498Use of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signalling networks using SILAC-based phosphoproteomics.Biochem J2020
32027661Informatics investigations into anti-thyroid drug induced agranulocytosis associated with multiple HLA-B alleles.PLoS One2020
31722398Allele frequency net database (AFND) 2020 update: gold-standard data classification, open access genotype data and new query tools.Nucleic Acids Res2020
31707663Proteome Bioinformatics Methods for Studying Histidine Phosphorylation.Methods Mol Biol2020
33065067Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry.Structure2020
32501498Use of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signalling networks using SILAC-based phosphoproteomics.Biochem J2020
32027661Informatics investigations into anti-thyroid drug induced agranulocytosis associated with multiple HLA-B alleles.PLoS One2020
31722398Allele frequency net database (AFND) 2020 update: gold-standard data classification, open access genotype data and new query tools.Nucleic Acids Res2020
31707663Proteome Bioinformatics Methods for Studying Histidine Phosphorylation.Methods Mol Biol2020
33065067Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry.Structure2020
30688441mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics.Anal Chem2019
30293062Improvements to the Rice Genome Annotation Through Large-Scale Analysis of RNA-Seq and Proteomics Data Sets.Mol Cell Proteomics2019
31494667VAPPER: High-throughput variant antigen profiling in African trypanosomes of livestock.Gigascience2019
30688441mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics.Anal Chem2019
31433507Strong anion exchange-mediated phosphoproteomics reveals extensive human non-canonical phosphorylation.EMBO J2019
31494667VAPPER: High-throughput variant antigen profiling in African trypanosomes of livestock.Gigascience2019
31433507Strong anion exchange-mediated phosphoproteomics reveals extensive human non-canonical phosphorylation.EMBO J2019
30293062Improvements to the Rice Genome Annotation Through Large-Scale Analysis of RNA-Seq and Proteomics Data Sets.Mol Cell Proteomics2019
29035042nmrML: A Community Supported Open Data Standard for the Description, Storage, and Exchange of NMR Data.Anal Chem2018
29035042nmrML: A Community Supported Open Data Standard for the Description, Storage, and Exchange of NMR Data.Anal Chem2018
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Collaborators

European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 27
EMBL-European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 25
Institute for Systems Biology
Co-authored papers 22
Co-authored papers 20
EMBL's European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 16
National Center for Biotechnology
Co-authored papers 13
Co-authored papers 11
The Institute for Translational Medicine and Therapeutics, University of Pennsylvania
Co-authored papers 7
Co-authored papers 6
European Molecular Biology Laboratory- European Bioinformatics Institute
Co-authored papers 6
Newcastle University
Co-authored papers 5
Co-authored papers 5
EMBL's European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 5
Max Planck Institute for Developmental Biology
Co-authored papers 5
Leibniz Institute for Plant Biochemistry
Co-authored papers 4
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 4
Department of Pharmaceutical Chemistry, University of California at San Francisco
Co-authored papers 4
Co-authored papers 4
ETH Zurich
Co-authored papers 3
Ruhr University Bochum
Co-authored papers 3
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 3
University of Lausanne
Co-authored papers 3
Institute for Bioinformatics and Medical Informatics, University of Tubingen
Co-authored papers 3
Co-authored papers 3
University of Pennsylvania
Co-authored papers 3
University of California
Co-authored papers 3
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University of Oxford
Co-authored papers 3
Co-authored papers 3
Utrecht University
Co-authored papers 2