VisioProt-MS: interactive 2D maps from intact protein mass spectrometry

Marie Locard-Paulet (1) , Julien Parra (1) , Renaud Albigot , Emmanuelle Mouton-Barbosa (1) , Laurent Bardi , Odile Burlet-Schiltz (1) , Julien Marcoux (2) , Alfonso Valencia (3)

1 IPBS - Institut de pharmacologie et de biologie structurale
2 IBS - UMR 5075 - Institut de biologie structurale
3 Dana-Farber Cancer Institute [Boston]

VisioProt-MS is designed to summarize and analyze intact protein and top-down proteomics data. It plots the molecular weights of eluting proteins as a function of their retention time, thereby allowing inspection of runs from liquid chromatography coupled to mass spectrom-etry (LC-MS). It also overlays MS/MS identification results. VisioProt-MS is compatible with outputs from many different top-down dedicated software. To our knowledge, this is the only open source standalone application that allows the dynamic comparison of several MS files, a prerequisite for comparative analysis of different biological conditions. With its dynamic rendering, this user-friendly web application facilitates inspection, comparison and export of publication quality 2 D maps from deconvoluted LC-MS run(s) and top-down proteomics data. Availability and implementation: The Shiny-based web application VisioProt-MS is suitable for non-R users. It can be found at https://masstools.ipbs.fr/mstools/visioprot-ms/ and the corresponding scripts are downloadable at https://github.com

Domaines: Bio-informatique [q-bio.QM]; Biochimie, Biologie Moléculaire

Marie Locard-Paulet, Julien Parra, Renaud Albigot, Emmanuelle Mouton-Barbosa, Laurent Bardi, et al.. VisioProt-MS: interactive 2D maps from intact protein mass spectrometry. Bioinformatics, 2019, 35 (4), pp.679-681. ⟨10.1093/bioinformatics/bty680⟩. ⟨hal-02179458⟩