SIMA: Simultaneous Multiple Alignment of LC/MS Peak Lists

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

(2010) Tomáš Pluskal et al.   BMC BIOINFORMATICS

Lipidomics: coming to grips with lipid diversity

(2010) Andrej Shevchenko et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Mass Spectrometry and Glycomics

(2010) Joseph Zaia   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Alignment Using Variable Penalty Dynamic Time Warping

(2009) David Clifford et al.   ANALYTICAL CHEMISTRY

Retention time alignment algorithms for LC/MS data must consider non-linear shifts

(2009) Katharina Podwojski et al.   BIOINFORMATICS

Protein quantification across hundreds of experimental conditions

(2009) Z. Khan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY

Comparative LC-MS: A landscape of peaks and valleys

(2008) Antoine H. P. America et al.   PROTEOMICS

Alignment of LC-MS images, with applications to biomarker discovery and protein identification

(2008) Mathias Vandenbogaert et al.   PROTEOMICS