Recent advances in mass spectrometry (MS)-based proteomics have enabled tremendous
progress in the understanding of cellular mechanisms, disease progression, and the …

This manuscript provides a comprehensive review of the peptide and protein identification
process using tandem mass spectrometry (MS/MS) data generated in shotgun proteomic …

Only three biological pathways are known to produce oxygen: photosynthesis, chlorate
respiration and the detoxification of reactive oxygen species. Here we present evidence for a …

Two distinct microbial processes, denitrification and anaerobic ammonium oxidation
(anammox), are responsible for the release of fixed nitrogen as dinitrogen gas (N2) to the …

Compelling evidence indicates that the CRISPR-Cas system protects prokaryotes from
viruses and other potential genome invaders. This adaptive prokaryotic immune system …

Automated methods for assigning peptides to observed tandem mass spectra typically return
a list of peptide− spectrum matches, ranked according to an arbitrary score. In this article, we …

The analysis of the large amount of data generated in mass spectrometry–based proteomics
experiments represents a significant challenge and is currently a bottleneck in many …

To complement the sequencing of the three kinetoplastid genomes reported in this issue, we
have undertaken a whole-organism, proteomic analysis of the four life-cycle stages of …

Abstract Background Extracellular vesicles (EVs) harbor thousands of proteins that hold
promise for biomarker development. Usually difficult to purify, EVs in urine are relatively …

Comprehensive characterization of a proteome is a fundamental goal in proteomics. To
achieve saturation coverage of a proteome or specific subproteome via tandem mass …