{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,4]],"date-time":"2026-04-04T18:06:25Z","timestamp":1775325985580,"version":"3.50.1"},"reference-count":18,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2018,4,5]],"date-time":"2018-04-05T00:00:00Z","timestamp":1522886400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"National Institutes of Science and Technology"},{"name":"INCT-FBN"},{"DOI":"10.13039\/501100003593","name":"National Council for Scientific and Technological Development","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003593","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002322","name":"Coordination for the Improvement of Higher Education Personnel","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100002322","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>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.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The software is available at http:\/\/www.ribopeaks.com.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty215","type":"journal-article","created":{"date-parts":[[2018,4,4]],"date-time":"2018-04-04T11:09:49Z","timestamp":1522840189000},"page":"3058-3060","source":"Crossref","is-referenced-by-count":18,"title":["Ribopeaks: a web tool for bacterial classification through <i>m<\/i>\/<i>z<\/i> data from ribosomal proteins"],"prefix":"10.1093","volume":"34","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-0728-0730","authenticated-orcid":false,"given":"Douglas","family":"Tomachewski","sequence":"first","affiliation":[{"name":"Postgraduate Program in Applied Computing, Department of Computer Science, State University of Ponta Grossa, PR, Brazil"},{"name":"Microbial Molecular Biology Laboratory, Sector of Biological and Health Sciences, State University of Ponta Grossa, PR, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carolina Weigert","family":"Galv\u00e3o","sequence":"additional","affiliation":[{"name":"Microbial Molecular Biology Laboratory, Sector of Biological and Health Sciences, State University of Ponta Grossa, PR, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Arion","family":"de Campos J\u00fanior","sequence":"additional","affiliation":[{"name":"Postgraduate Program in Applied Computing, Department of Computer Science, State University of Ponta Grossa, PR, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Alaine Margarete","family":"Guimar\u00e3es","sequence":"additional","affiliation":[{"name":"Postgraduate Program in Applied Computing, Department of Computer Science, State University of Ponta Grossa, PR, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jos\u00e9 Carlos","family":"Ferreira da Rocha","sequence":"additional","affiliation":[{"name":"Postgraduate Program in Applied Computing, Department of Computer Science, State University of Ponta Grossa, PR, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rafael Mazer","family":"Etto","sequence":"additional","affiliation":[{"name":"Postgraduate Program in Applied Computing, Department of Computer Science, State University of Ponta Grossa, PR, Brazil"},{"name":"Microbial Molecular Biology Laboratory, Sector of Biological and Health Sciences, State University of Ponta Grossa, PR, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2018,4,5]]},"reference":[{"key":"2023061313381026000_bty215-B1","doi-asserted-by":"crossref","first-page":"D37.","DOI":"10.1093\/nar\/gkw1070","article-title":"GenBank","volume":"45","author":"Benson","year":"2017","journal-title":"Nucleic Acids Res"},{"key":"2023061313381026000_bty215-B100","doi-asserted-by":"crossref","first-page":"2138","DOI":"10.1002\/elps.201200074","article-title":"SpectraBank: an open access tool for rapid microbial identification by MALDI-TOF MS fingerprinting","volume":"33","author":"B\u00f6hme","year":"2012","journal-title":"Electrophoresis"},{"key":"2023061313381026000_bty215-B2","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1146\/annurev.anchem.1.031207.112838","article-title":"Mass spectrometry for rapid characterization of microorganisms","volume":"1","author":"Demirev","year":"2008","journal-title":"Annu. 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