A flexible statistical model for alignment of label-free proteomics data – incorporating ion mobility and product ion information

Improved Mass Defect Model for Theoretical Tryptic Peptides

(2012) Indranil Mitra et al.   ANALYTICAL CHEMISTRY

Retention Time Alignment of LC/MS Data by a Divide-and-Conquer Algorithm

(2012) Zhongqi Zhang   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

High predictive accuracy of an unbiased proteomic profile for sustained virologic response in chronic hepatitis C patients

(2011) Keyur Patel et al.   HEPATOLOGY

Examining Troughs in the Mass Distribution of All Theoretically Possible Tryptic Peptides

(2011) Alexey V. Nefedov et al.   JOURNAL OF PROTEOME RESEARCH

A new method for alignment of LC-MALDI-TOF data

(2011) Zhiqun Tang et al.   Proteome Science

MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data

(2010) Tomáš Pluskal et al.   BMC BIOINFORMATICS

Image analysis tools and emerging algorithms for expression proteomics

(2010) Andrew W. Dowsey et al.   PROTEOMICS

apLCMS—adaptive processing of high-resolution LC/MS data

(2009) Tianwei Yu et al.   BIOINFORMATICS

Review of Peak Detection Algorithms in Liquid-Chromatography-Mass Spectrometry

(2009) Jianqiu Zhang et al.   CURRENT GENOMICS

A HUPO test sample study reveals common problems in mass spectrometry–based proteomics

(2009) Alexander W Bell et al.   NATURE METHODS

Database searching and accounting of multiplexed precursor and product ion spectra from the data independent analysis of simple and complex peptide mixtures

(2009) Guo-Zhong Li et al.   PROTEOMICS

The detection, correlation, and comparison of peptide precursor and product ions from data independent LC-MS with data dependant LC-MS/MS

(2009) Scott J. Geromanos et al.   PROTEOMICS

OpenMS – An open-source software framework for mass spectrometry

(2008) Marc Sturm et al.   BMC BIOINFORMATICS

Critical assessment of alignment procedures for LC-MS proteomics and metabolomics measurements

(2008) Eva Lange et al.   BMC BIOINFORMATICS

PROTEOMICS: Proteomics Ponders Prime Time

(2008) R. F. Service   SCIENCE