{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,26]],"date-time":"2026-08-26T20:00:27Z","timestamp":1787774427588,"version":"build-2784847793"},"reference-count":23,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2026,6,18]],"date-time":"2026-06-18T00:00:00Z","timestamp":1781740800000},"content-version":"vor","delay-in-days":168,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001659","name":"German Research Foundation","doi-asserted-by":"crossref","award":["460129525"],"award-info":[{"award-number":["460129525"]}],"id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001659","name":"German Research Foundation","doi-asserted-by":"crossref","award":["445552570"],"award-info":[{"award-number":["445552570"]}],"id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Microbiologists use MALDI-TOF for fast and cheap identification of microbial isolates. However, most standard procedures rely on a commercial database. Bioinformatic tools to dereplicate MALDI-TOF spectra have been developed, but an open and resource-efficient tool to reduce the redundancy of microbial isolates is lacking. Here we develop \u201cmaldipickr\u201d for de novo-clustering of MALDI-TOF spectra to dereplicate and select isolates, and thereby facilitate large-scale cultivation projects.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>The R package \u201cmaldipickr\u201d is available through CRAN at https:\/\/doi.org\/10.32614\/CRAN.package.maldipickr along extensive documentation at https:\/\/clavellab.github.io\/maldipickr.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioadv\/vbag171","type":"journal-article","created":{"date-parts":[[2026,6,16]],"date-time":"2026-06-16T12:21:43Z","timestamp":1781612503000},"source":"Crossref","is-referenced-by-count":2,"title":["maldipickr dereplicates microbial MALDI-TOF spectra to facilitate multiplexed isolation"],"prefix":"10.1093","volume":"6","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9832-2507","authenticated-orcid":false,"given":"Charlie","family":"Pauvert","sequence":"first","affiliation":[{"name":"Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen , Aachen 52074,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8424-5712","authenticated-orcid":false,"given":"David","family":"Wylensek","sequence":"additional","affiliation":[{"name":"Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen , Aachen 52074,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Selina","family":"N\u00fcchtern","sequence":"additional","affiliation":[{"name":"Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen , Aachen 52074,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7229-5595","authenticated-orcid":false,"given":"Thomas","family":"Clavel","sequence":"additional","affiliation":[{"name":"Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen , Aachen 52074,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,6,17]]},"reference":[{"key":"2026063015321821700_vbag171-B1","doi-asserted-by":"publisher","first-page":"1104707","DOI":"10.3389\/fmicb.2023.1104707","article-title":"A MALDI-TOF MS library for rapid identification of human commensal gut bacteria from the class clostridia","volume":"14","author":"Asare","year":"2023","journal-title":"Front 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