Open AccessRibopeaks: a web tool for bacterial classification through m/z data from ribosomal proteins
Author(s) -
Douglas Tomachewski,
Carolina Weigert Galvão,
Arion de Campos Júnior,
Alaine Margarete Guimarães,
José Carlos Ferreira da Rocha,
Rafael Mazer Etto
Publication year - 2018
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/bty215
Subject(s) - genbank , bacteria , computer science , identification (biology) , bacterial taxonomy , classifier (uml) , ribosomal protein , software , database , ribosomal rna , computational biology , biology , 16s ribosomal rna , artificial intelligence , genetics , ribosome , programming language , rna , botany , gene
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.
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