In recent decades, mass spectrometry has moved more than ever before into the front line of
protein-centered research. After being established at the qualitative level, the more …

Two-dimensional gel electrophoresis was instrumental in the birth of proteomics in the late
1980s. However, it is now often considered as an outdated technique for proteomics—a …

The original PRIDE Inspector tool was developed as an open source standalone tool to
enable the visualization and validation of mass-spectrometry (MS)-based proteomics data …

Abstract One challenge in Multiple Reaction Monitoring (MRM)-based proteomics is to select
the most appropriate surrogate peptides to represent a target protein. We present here a …

We are moving into the age of 'Big Data'in biomedical research and bioinformatics. This
trend could be encapsulated in this simple formula: D= S* F, where the volume of data …

Most methods for interpreting data from shotgun proteomics experiments are to large degree
dependent on being able to predict properties of peptide‐ions. Often such predicted …

Chemical cross-linking has emerged as a powerful approach for the structural
characterization of proteins and protein complexes. However, the correct identification of …

Motivation: In any macromolecular polyprotic system—for example protein, DNA or RNA—
the isoelectric point—commonly referred to as the p I—can be defined as the point of …

Data processing, management and visualization are central and critical components of a
state of the art high-throughput mass spectrometry (MS)-based proteomics experiment, and …

In mass spectrometry-based shotgun proteomics, protein identifications are usually the
desired result. However, most of the analytical methods are based on the identification of …