PRIDE: The proteomics identifications database

Keywords

Computer science, Upload, Interface (matter), World Wide Web, Database

References

• The need for a public proteomics repositoryJohn T. Prince, Mark W. Carlson, Rong Wang — 2004
• The HUPO PSI's Molecular Interaction format—a community standard for the representation of protein interaction dataHenning Hermjakob, Luisa Montecchi‐Palazzi, Gary D. Bader — 2004
• New approaches towards integrated proteomic databases and depositoriesChristian Rohlff — 2004
• Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptidesKris Gevaert, Marc Goethals, Lennart Martens — 2003
• What to do with “one‐hit wonders”?Timothy D. Veenstra, Thomas P. Conrads, Haleem J. Issaq — 2004
• Data management and preliminary data analysis in the pilot phase of the HUPO Plasma Proteome ProjectMarcin Adamski, Thomas W. Blackwell, Rajasree Menon — 2005
• Reversible labeling of cysteine‐containing peptides allows their specific chromatographic isolation for non‐gel proteome studiesKris Gevaert, Bart Ghesquière, An Staes — 2004
• The Need for Guidelines in Publication of Peptide and Protein Identification DataSteven A. Carr, Ruedi Aebersold, Michael A. Baldwin — 2004
• MS1, MS2, and SQT-three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications.W. Hayes McDonald, David L. Tabb, Rovshan G. Sadygov — 2004
• Chemical probes and tandem mass spectrometry: a strategy for the quantitative analysis of proteomes and subproteomes.Hui Zhang, Wei Yan, Ruedi Aebersold — 2004
• The Human Proteome Organization Plasma Proteome Project pilot phase: Reference specimens, technology platform comparisons, and standardized data submissions and analysesGilbert S. Omenn — 2004
• A common open representation of mass spectrometry data and its application to proteomics researchPatrick G. A. Pedrioli, Jimmy K. Eng, Robert Hubley — 2004
• Advances in the development of common interchange standards for proteomic dataSandra Orchard, Chris Taylor, Henning Hermjakob — 2004
• The Human Proteome OrganizationSamir Hanash, Julio E. Celis — 2002
• Chromatographic Isolation of Methionine-containing Peptides for Gel-free Proteome AnalysisKris Gevaert, Jo Van Damme, Marc Goethals — 2002

Cited by

• Proteomics analyses reveal the evolutionary conservation and divergence of N-terminal acetyltransferases from yeast and humansS. Rebout — 2009
• Proteomic analysis of the proplastid envelope membrane provides novel insights into small molecule and protein transport across proplastid membranes.Eugene R. Fidell, W.C. Marcoux — 2009
• A report on the ESF workshop on quality control in proteomics.Patrícia Birman — 2010
• Laboratory data and sample management for proteomics.A. Dobson — 2011
• The Human Proteome Project: Current State and Future DirectionA.A. van der Zee-Nefkens — 2011
• Translational research platforms integrating clinical and omics data: a review of publicly available solutionsJosé Darío Martínez Villarreal — 2014
• Peptide retention time prediction.David C. Edwards — 2017
• Positional proteomics reveals differences in N‐terminal proteoform stability達也 加藤, 清 上村, 泰 倉石 — 2016
• Advances in quadrupole and time‐of‐flight mass spectrometry for peptide MRM based translational research analysisJohn J. Kim — 2016
• Novel protein signatures suggest progression to muscular invasiveness in bladder cancerAmechi Uchegbu — 2018
• BNDb--Biomolecules Nucleus Database: an integrated proteomics and transcriptomics database.Alessandra Faria-Campos, Renata Rodrigues Gomes, F S Moratelli — 2007
• Plant proteomics: from genome sequencing to proteome databases and repositories.Katsumi Sakata, Setsuko Komatsu — 2014
• Aggregation, Dissemination, and Analysis of High-throughput Scientific Data Sets in the Field of Proteomics.Jayson Falkner — 2008
• Mass spectrometry-driven proteomics: an introduction.Kenny Helsens, Lennart Martens, Joël Vandekerckhove — 2011
• Bioinformatics for LC-MS/MS-based proteomics.Richard J. Jacob — 2010
• Algorithms and databases.Lennart Martens, Rolf Apweiler — 2009
• An Application of Latent Topic Document Analysis to Large-Scale Proteomics DatabasesSebastian Klie, Lennart Martens, Juan Antonio Vizcaíno — 2007
• Submitting proteomics data to PRIDE using PRIDE Converter.Harald Barsnes, Juan Antonio Vizcaíno, Florian Reisinger — 2011
• Tranche distributed repository and ProteomeCommons.org.Bryan E. Smith, James A. Hill, Mark A. Gjukich — 2011
• The PeptideAtlas ProjectEric W. Deutsch — 2010

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