{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,11]],"date-time":"2026-07-11T16:39:53Z","timestamp":1783787993979,"version":"3.55.0"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"23","license":[{"start":{"date-parts":[[2017,8,14]],"date-time":"2017-08-14T00:00:00Z","timestamp":1502668800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001711","name":"Swiss National Science Foundation","doi-asserted-by":"publisher","award":["31003A-160095"],"award-info":[{"award-number":["31003A-160095"]}],"id":[{"id":"10.13039\/501100001711","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,12,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Ribosomal RNA profiling has become crucial to studying microbial communities, but meaningful taxonomic analysis and inter-comparison of such data are still hampered by technical limitations, between-study design variability and inconsistencies between taxonomies used.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>Here we present MAPseq, a framework for reference-based rRNA sequence analysis that is up to 30% more accurate (F\u00bd score) and up to one hundred times faster than existing solutions, providing in a single run multiple taxonomy classifications and hierarchical operational taxonomic unit mappings, for rRNA sequences in both amplicon and shotgun sequencing strategies, and for datasets of virtually any size.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Source code and binaries are freely available at https:\/\/github.com\/jfmrod\/mapseq<\/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\/btx517","type":"journal-article","created":{"date-parts":[[2017,8,10]],"date-time":"2017-08-10T15:14:46Z","timestamp":1502378086000},"page":"3808-3810","source":"Crossref","is-referenced-by-count":161,"title":["MAPseq: highly efficient k-mer search with confidence estimates, for rRNA sequence analysis"],"prefix":"10.1093","volume":"33","author":[{"given":"Jo\u00e3o F","family":"Matias Rodrigues","sequence":"first","affiliation":[{"name":"Department of Molecular Life Sciences, and Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas S B","family":"Schmidt","sequence":"additional","affiliation":[{"name":"Department of Molecular Life Sciences, and Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Janko","family":"Tackmann","sequence":"additional","affiliation":[{"name":"Department of Molecular Life Sciences, and Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christian","family":"von Mering","sequence":"additional","affiliation":[{"name":"Department of Molecular Life Sciences, and Swiss Institute of Bioinformatics, University of Zurich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2017,8,14]]},"reference":[{"key":"2023020207004339500_btx517-B1","doi-asserted-by":"crossref","first-page":"e1004658","DOI":"10.1371\/journal.pcbi.1004658","article-title":"NINJA-OPS: fast accurate marker gene alignment using concatenated ribosomes","volume":"12","author":"Al-Ghalith","year":"2016","journal-title":"PLoS Comput. 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