Proteomics plays a vital role in biomedical research in the post-genomic era. With the
technological revolution and emerging computational and statistic models, proteomic …

Proteomics researchers today face an interesting challenge: how to choose among the
dozens of data processing and analysis pipelines available for converting tandem mass …

The eukaryotic cell is compartmentalized into subcellular niches, including membrane-
bound and membrane-less organelles. Proteins localize to these niches to fulfil their …

We present version 2 of the MSnbase R/Bioconductor package. MSnbase provides
infrastructure for the manipulation, processing, and visualization of mass spectrometry data …

Mass spectrometry-based proteomics coupled to liquid chromatography has matured into an
automatized, high-throughput technology, producing data on the scale of multiple gigabytes …

Testing for significant differences in quantities at the protein level is a common goal of many
LFQ-based mass spectrometry proteomics experiments. Starting from a table of protein …

The detailed molecular characterization of petroleum-related samples by mass
spectrometry, often referred to as petroleomics, continues to present significant analytical …

Recent functional, proteomic and ribosome profiling studies in eukaryotes have concurrently
demonstrated the translation of alternative open-reading frames (altORFs) in addition to …

Single-cell tandem MS has enabled analyzing hundreds of single cells per day and
quantifying thousands of proteins across the cells. The broad dissemination of these …

Mass‐spectrometry based bottom‐up proteomics is the main method to analyze proteomes
comprehensively and the rapid evolution of instrumentation and data analysis has made the …