Top-Down Garbage Collector: a tool for selecting high-quality top-down proteomics mass spectra

Diogo Lima (1) , André Silva (2) , Mathieu Dupré (1) , Marlon Santos (2) , Milan Clasen (2) , Louise Kurt (2) , Priscila Aquino (3) , Valmir C Barbosa (4) , Paulo Carvalho (2) , Julia Chamot-Rooke (1)

1 UTechS MSBio - Spectrométrie de Masse pour la Biologie – Mass Spectrometry for Biology
2 ICC - Fiocruz Paraná - Instituto Carlos Chagas / Carlos Chagas Institute [Curitiba, Brésil]
3 ILMD - Instituto Leônidas e Maria Deane - Fiocruz Amazônia [Manaus, Brésil]
4 UFRJ - Universidade Federal do Rio de Janeiro [Brasil] = Federal University of Rio de Janeiro [Brazil] = Université fédérale de Rio de Janeiro [Brésil]

MOTIVATION: We present the first tool for unbiased quality control of top-down proteomics datasets. Our tool can select high-quality top-down proteomics spectra, serve as a gateway for building top-down spectral libraries and, ultimately, improve identification rates. RESULTS: We demonstrate that a twofold rate increase for two E. coli top-down proteomics datasets may be achievable. AVAILABILITY AND IMPLEMENTATION: http://patternlabforproteomics.org/tdgc, freely available for academic use. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

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

Diogo Lima, André Silva, Mathieu Dupré, Marlon Santos, Milan Clasen, et al.. Top-Down Garbage Collector: a tool for selecting high-quality top-down proteomics mass spectra. Bioinformatics, 2019, 35 (18), pp.3489-3490. ⟨10.1093/bioinformatics/btz085⟩. ⟨pasteur-02330759⟩