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

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 …

Ticks transmit more pathogens to humans and animals than any other arthropod. We
describe the 2.1 Gbp nuclear genome of the tick, Ixodes scapularis (Say), which vectors …

Extracellular vesicles are emerging as a potent mechanism of intercellular communication
because they can systemically exchange genetic and protein material between cells …

Candidate proteomic biomarker discovery from human plasma holds both incredible clinical
potential as well as significant challenges. The dynamic range of proteins within plasma is …

Using decoy databases to estimate the number of false positive assignations is one of the
most widely used methods to calculate false discovery rates in large-scale peptide …

In the late 1980s, the advent of soft ionization techniques capable of generating stable gas
phase ions from thermally unstable biomolecules, namely matrix-assisted laser …

Proteolytic digestion of proteins in seconds under an ultrasonic field provided by high-
intensity focused ultrasound (HIFU) has been achieved. Successful in-solution and in-gel …

High throughput identification of peptides in databases from tandem mass spectrometry data
is a key technique in modern proteomics. Common approaches to interpret large scale …

Development of robust statistical methods for validation of peptide assignments to tandem
mass (MS/MS) spectra obtained using database searching remains an important problem …