Building ProteomeTools based on a complete synthetic human proteome

Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome

(2016) Ulrike Kusebauch et al.   CELL

Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry

(2016) Robert T Lawrence et al.   NATURE METHODS

Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets

(2016) Johannes Griss et al.   NATURE METHODS

Effective Leveraging of Targeted Search Spaces for Improving Peptide Identification in Tandem Mass Spectrometry Based Proteomics

(2015) Avinash K. Shanmugam et al.   JOURNAL OF PROTEOME RESEARCH

A Calibration Routine for Efficient ETD in Large-Scale Proteomics

(2015) Christopher M. Rose et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

A Scalable Approach for Protein False Discovery Rate Estimation in Large Proteomic Data Sets

(2015) Mikhail M. Savitski et al.   MOLECULAR & CELLULAR PROTEOMICS

Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps

(2015) Tiannan Guo et al.   NATURE MEDICINE

MSPLIT-DIA: sensitive peptide identification for data-independent acquisition

(2015) Jian Wang et al.   NATURE METHODS

An Augmented Multiple-Protease-Based Human Phosphopeptide Atlas

(2015) Piero Giansanti et al.   Cell Reports

Intelligent Data Acquisition Blends Targeted and Discovery Methods

(2014) Derek J. Bailey et al.   JOURNAL OF PROTEOME RESEARCH

Mass-spectrometry-based draft of the human proteome

(2014) Mathias Wilhelm et al.   NATURE

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

(2014) Juan A Vizcaíno et al.   NATURE BIOTECHNOLOGY

Protein Analysis by Shotgun/Bottom-up Proteomics

(2013) Yaoyang Zhang et al.   CHEMICAL REVIEWS

A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis

(2013) Paola Picotti et al.   NATURE

A large synthetic peptide and phosphopeptide reference library for mass spectrometry–based proteomics

(2013) Harald Marx et al.   NATURE BIOTECHNOLOGY

Machine learning applications in proteomics research: How the past can boost the future

(2013) Pieter Kelchtermans et al.   PROTEOMICS

Targeted Proteomic Quantification on Quadrupole-Orbitrap Mass Spectrometer

(2012) Sebastien Gallien et al.   MOLECULAR & CELLULAR PROTEOMICS

Using iRT, a normalized retention time for more targeted measurement of peptides

(2012) Claudia Escher et al.   PROTEOMICS

Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment

(2011) Jürgen Cox et al.   JOURNAL OF PROTEOME RESEARCH

Generating and navigating proteome maps using mass spectrometry

(2010) Christian H. Ahrens et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY