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Ribopeaks: a web tool for bacterial classification through m / z data from ribosomal proteins

2018; Oxford University Press; Volume: 34; Issue: 17 Linguagem: Inglês

10.1093/bioinformatics/bty215

1367-4811

Douglas Tomachewski, Carolina Weigert Galvão, Arion de Campos Júnior, Alaine Margarete Guimarães, José Carlos Ferreira da Rocha, Rafael Mazer Etto,

Infective Endocarditis Diagnosis and Management

Abstract Summary MALDI-TOF MS is a rapid, sensitive and economic tool for bacterial identification. Highly abundant bacterial proteins are detected by this technique, including ribosomal proteins (r-protein), and the generated mass spectra are compared with a MALDI-TOF MS spectra database. Currently, it allows mainly the classification of clinical bacteria due to the limited number of environmental bacteria included in the spectra database. We present a wide-ranging bacterium classifier tool, called Ribopeaks, which was created based on r-protein data from the Genbank. The Ribopeaks database has more than 28 500 bacterial taxonomic records. It compares the incoming m/z data from MALDI-TOF MS analysis with models stored in the Ribopeaks database created by machine learning and then taxonomically classifies the bacteria. Availability and implementation The software is available at http://www.ribopeaks.com. Supplementary information Supplementary data are available at Bioinformatics online.