High-resolution native mass spectrometry

S Tamara, MA den Boer, AJR Heck - Chemical Reviews, 2021 - ACS Publications
Native mass spectrometry (MS) involves the analysis and characterization of
macromolecules, predominantly intact proteins and protein complexes, whereby as much as …

Top down proteomics: facts and perspectives

AD Catherman, OS Skinner, NL Kelleher - Biochemical and biophysical …, 2014 - Elsevier
The rise of the “Top Down” method in the field of mass spectrometry-based proteomics has
ushered in a new age of promise and challenge for the characterization and identification of …

An introduction to mass spectrometry-based proteomics

SR Shuken - Journal of Proteome Research, 2023 - ACS Publications
Mass spectrometry is unmatched in its versatility for studying practically any aspect of the
proteome. Because the foundations of mass spectrometry-based proteomics are complex …

Bayesian deconvolution of mass and ion mobility spectra: from binary interactions to polydisperse ensembles

MT Marty, AJ Baldwin, EG Marklund… - Analytical …, 2015 - ACS Publications
Interpretation of mass spectra is challenging because they report a ratio of two physical
quantities, mass and charge, which may each have multiple components that overlap in m/z …

Fast deisotoping algorithm and its implementation in the MSFragger search engine

GC Teo, DA Polasky, F Yu… - Journal of proteome …, 2020 - ACS Publications
Deisotoping, or the process of removing peaks in a mass spectrum resulting from the
incorporation of naturally occurring heavy isotopes, has long been used to reduce …

Identification and quantification of proteoforms by mass spectrometry

LV Schaffer, RJ Millikin, RM Miller, LC Anderson… - …, 2019 - Wiley Online Library
A proteoform is a defined form of a protein derived from a given gene with a specific amino
acid sequence and localized post‐translational modifications. In top‐down proteomic …

Mapping intact protein isoforms in discovery mode using top-down proteomics

JC Tran, L Zamdborg, DR Ahlf, JE Lee, AD Catherman… - Nature, 2011 - nature.com
A full description of the human proteome relies on the challenging task of detecting mature
and changing forms of protein molecules in the body. Large-scale proteome analysis has …

OpenMS–an open-source software framework for mass spectrometry

M Sturm, A Bertsch, C Gröpl, A Hildebrandt… - BMC …, 2008 - Springer
Background Mass spectrometry is an essential analytical technique for high-throughput
analysis in proteomics and metabolomics. The development of new separation techniques …

Extracting accurate precursor information for tandem mass spectra by RawConverter

L He, J Diedrich, YY Chu, JR Yates III - Analytical chemistry, 2015 - ACS Publications
Extraction of data from the proprietary RAW files generated by Thermo Fisher mass
spectrometers is the primary step for subsequent data analysis. High resolution and high …

Top-down proteomics: ready for prime time?

B Chen, KA Brown, Z Lin, Y Ge - Analytical chemistry, 2017 - ACS Publications
Beyond the genetic code, the human proteome is greatly diversified by genetic variations,
alternative splicing of RNA transcripts, and post-translational modifications (PTMs). 6, 7 In …