Proteomic analysis of post-translational modifications

M Mann, ON Jensen - Nature biotechnology, 2003 - nature.com
Post-translational modifications modulate the activity of most eukaryote proteins. Analysis of
these modifications presents formidable challenges but their determination generates …

Quantitative mass spectrometry in proteomics: a critical review

M Bantscheff, M Schirle, G Sweetman, J Rick… - Analytical and …, 2007 - Springer
The quantification of differences between two or more physiological states of a biological
system is among the most important but also most challenging technical tasks in proteomics …

Prediction of peptide mass spectral libraries with machine learning

J Cox - Nature Biotechnology, 2023 - nature.com
The recent development of machine learning methods to identify peptides in complex mass
spectrometric data constitutes a major breakthrough in proteomics. Longstanding methods …

Mechanisms of Antibacterial Activity of MgO: Non‐ROS Mediated Toxicity of MgO Nanoparticles Towards Escherichia coli

YH Leung, AMC Ng, X Xu, Z Shen, LA Gethings… - Small, 2014 - Wiley Online Library
The toxicity of metal oxide nanomaterials and their antimicrobial activity is attracting
increasing attention. Among these materials, MgO is particularly interesting as a low cost …

Modification-specific proteomics: characterization of post-translational modifications by mass spectrometry

ON Jensen - Current opinion in chemical biology, 2004 - Elsevier
Post-translational modifications generate tremendous diversity, complexity and
heterogeneity of gene products, and their determination is one of the main challenges in …

Label-free quantification in ion mobility–enhanced data-independent acquisition proteomics

U Distler, J Kuharev, P Navarro, S Tenzer - Nature protocols, 2016 - nature.com
Unbiased data-independent acquisition (DIA) strategies have gained increased popularity in
the field of quantitative proteomics. The integration of ion mobility separation (IMS) into DIA …

Database searching and accounting of multiplexed precursor and product ion spectra from the data independent analysis of simple and complex peptide mixtures

GZ Li, JPC Vissers, JC Silva, D Golick… - …, 2009 - Wiley Online Library
A novel database search algorithm is presented for the qualitative identification of proteins
over a wide dynamic range, both in simple and complex biological samples. The algorithm …

Highly selective enrichment of phosphorylated peptides using titanium dioxide

TE Thingholm, TJD Jørgensen, ON Jensen… - Nature protocols, 2006 - nature.com
The characterization of phosphorylated proteins is a challenging analytical task since many
of the proteins targeted for phosphorylation are low in abundance and phosphorylation is …

The detection, correlation, and comparison of peptide precursor and product ions from data independent LC‐MS with data dependant LC‐MS/MS

SJ Geromanos, JPC Vissers, JC Silva… - …, 2009 - Wiley Online Library
The detection, correlation, and comparison of peptide and product ions from a data
independent LC‐MS acquisition strategy with data dependent LC‐MS/MS is described. The …

UPLC/MSE; a new approach for generating molecular fragment information for biomarker structure elucidation

RS Plumb, KA Johnson, P Rainville… - … Journal Devoted to …, 2006 - Wiley Online Library
A new approach to obtain fragmentation information in liquid chromatography/mass
spectrometry (LC/MS) studies of small molecules in complex mixtures is presented using …