FlashPack: Fast and Simple Preparation of Ultrahigh-performance Capillary Columns for LC-MS*

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

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Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

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2016 update of the PRIDE database and its related tools

Juan Antonio Vizcaíno, Attila Csordás, Noemí del‐Toro et al. · Nucleic Acids Research · 2015 · 3.6K citations · Full text

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PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification

Jing Zhang, Lei Xin, Baozhen Shan et al. · Molecular & Cellular Proteomics · 2011 · 1.1K citations · Full text

Phase Transfer Surfactant-Aided Trypsin Digestion for Membrane Proteome Analysis

Takeshi Masuda, Masaru Tomita, Yasushi Ishihama · Journal of Proteome Research · 2008 · 671 citations