Hybrid analytical instrumentation constructed around mass spectrometry (MS) is becoming
the preferred technique for addressing many grand challenges in science and medicine …

The proteomic analysis of glycosylation is uniquely challenging. The numerous and varied
biological roles of protein-linked glycans have fueled a tremendous demand for …

High-resolution mass spectra of natural organic matter (NOM) contain a large number of
noise signals. These signals interfere with the correct molecular composition estimation …

For bottom-up proteomic analysis, the goal of analytical pipelines that process the raw
output of mass spectrometers is to detect, characterise, identify, and quantify peptides. The …

SEQUEST has long been used to identify peptides/proteins from their tandem mass spectra
and protein sequence databases. The algorithm has proven to be hugely successful for its …

Although physicochemical fractionation techniques play a crucial role in the analysis of
complex mixtures, they are not necessarily the best solution to separate specific molecular …

We studied the use of peak deviations (PDs) for application in phosphoproteomics. Due to
the differences in the mass defects, the PDs of samples containing mixtures of …

Background The goal of many proteomics experiments is to determine the abundance of
proteins in biological samples, and the variation thereof in various physiological conditions …

Rationale Many MS2 spectra in bottom‐up proteomics experiments remain unassigned. To
improve proteome coverage, we applied the half decimal place rule (HDPR) to remove non …

The high mass accuracy and resolution of modern mass spectrometers provides new
opportunities to employ theoretical peptide distributions in large-scale proteomic studies. We …