{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,6]],"date-time":"2026-05-06T11:45:13Z","timestamp":1778067913783,"version":"3.51.4"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2018,7,9]],"date-time":"2018-07-09T00:00:00Z","timestamp":1531094400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100004281","name":"National Science Centre","doi-asserted-by":"publisher","award":["DEC-2015\/17\/B\/ST6\/01890"],"award-info":[{"award-number":["DEC-2015\/17\/B\/ST6\/01890"]}],"id":[{"id":"10.13039\/501100004281","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100007835","name":"Silesian University of Technology","doi-asserted-by":"publisher","award":["BKM-509\/RAU2\/2017"],"award-info":[{"award-number":["BKM-509\/RAU2\/2017"]}],"id":[{"id":"10.13039\/501100007835","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100007835","name":"Silesian University of Technology","doi-asserted-by":"publisher","award":["POIG.02.03.01-24-099\/13"],"award-info":[{"award-number":["POIG.02.03.01-24-099\/13"]}],"id":[{"id":"10.13039\/501100007835","id-type":"DOI","asserted-by":"publisher"}]},{"name":"\u2018GeCONiI\u2014Upper Silesian Center"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>Kmer-db is a new tool for estimating evolutionary relationship on the basis of k-mers extracted from genomes or sequencing reads. Thanks to an efficient data structure and parallel implementation, our software estimates distances between 40 715 pathogens in &amp;lt;7 min (on a modern workstation), 26 times faster than Mash, its main competitor.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>https:\/\/github.com\/refresh-bio\/kmer-db and http:\/\/sun.aei.polsl.pl\/REFRESH\/kmer-db.<\/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\/bty610","type":"journal-article","created":{"date-parts":[[2018,7,7]],"date-time":"2018-07-07T01:42:12Z","timestamp":1530927732000},"page":"133-136","source":"Crossref","is-referenced-by-count":37,"title":["Kmer-db: instant evolutionary distance estimation"],"prefix":"10.1093","volume":"35","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9496-733X","authenticated-orcid":false,"given":"Sebastian","family":"Deorowicz","sequence":"first","affiliation":[{"name":"Institute of Informatics, Faculty of Automatic Control, Electronics and Computer Science, Silesian University of Technology, Gliwice, Poland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Adam","family":"Gudy\u015b","sequence":"additional","affiliation":[{"name":"Institute of Informatics, Faculty of Automatic Control, Electronics and Computer Science, Silesian University of Technology, Gliwice, Poland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maciej","family":"D\u0142ugosz","sequence":"additional","affiliation":[{"name":"Institute of Informatics, Faculty of Automatic Control, Electronics and Computer Science, Silesian University of Technology, Gliwice, Poland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Marek","family":"Kokot","sequence":"additional","affiliation":[{"name":"Institute of Informatics, Faculty of Automatic Control, Electronics and Computer Science, Silesian University of Technology, Gliwice, Poland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Agnieszka","family":"Danek","sequence":"additional","affiliation":[{"name":"Institute of Informatics, Faculty of Automatic Control, Electronics and Computer Science, Silesian University of Technology, Gliwice, Poland"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2018,7,9]]},"reference":[{"key":"2023013107203115100_bty610-B1","first-page":"21","article-title":"On the resemblance and containment of documents","author":"Broder","year":"1997","journal-title":"Proceedings of the Compression and Complexity of Sequences"},{"key":"2023013107203115100_bty610-B2","doi-asserted-by":"crossref","first-page":"194","DOI":"10.1109\/TIT.1975.1055349","article-title":"Universal codeword sets and representations of the integers","volume":"21","author":"Elias","year":"1975","journal-title":"IEEE Trans. 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