{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:38:59Z","timestamp":1740184739806,"version":"3.37.3"},"reference-count":4,"publisher":"Oxford University Press (OUP)","issue":"7","license":[{"start":{"date-parts":[[2019,12,12]],"date-time":"2019-12-12T00:00:00Z","timestamp":1576108800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"Chan Zuckerberg Initiative DAF"},{"DOI":"10.13039\/100000923","name":"Silicon Valley Community Foundation","doi-asserted-by":"publisher","award":["2018-182798","2018-182799"],"award-info":[{"award-number":["2018-182798","2018-182799"]}],"id":[{"id":"10.13039\/100000923","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Strategic Research Initiative"},{"DOI":"10.13039\/100014535","name":"Mayo Clinic Center for Individualized Medicine","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100014535","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Todd and Karen Wanek Program for Hypoplastic Left Heart Syndrome"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,4,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>In an effort to provide a response to the ever-expanding generation of genomic data, the International Organization for Standardization (ISO) is designing a new solution for the representation, compression and management of genomic sequencing data: the Moving Picture Experts Group (MPEG)-G standard. This paper discusses the first implementation of an MPEG-G compliant entropy codec: GABAC. GABAC combines proven coding technologies, such as context-adaptive binary arithmetic coding, binarization schemes and transformations, into a straightforward solution for the compression of sequencing data.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We demonstrate that GABAC outperforms well-established (entropy) codecs in a significant set of cases and thus can serve as an extension for existing genomic compression solutions, such as CRAM.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The GABAC library is written in C++. We also provide a command line application which exercises all features provided by the library. GABAC can be downloaded from https:\/\/github.com\/mitogen\/gabac.<\/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\/btz922","type":"journal-article","created":{"date-parts":[[2019,12,9]],"date-time":"2019-12-09T12:08:41Z","timestamp":1575893321000},"page":"2275-2277","source":"Crossref","is-referenced-by-count":7,"title":["GABAC: an arithmetic coding solution for genomic data"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6080-660X","authenticated-orcid":false,"given":"Jan","family":"Voges","sequence":"first","affiliation":[{"name":"Institut f\u00fcr Informationsverarbeitung (TNT), Leibniz University Hannover , 30167 Hannover, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1671-3748","authenticated-orcid":false,"given":"Tom","family":"Paridaens","sequence":"additional","affiliation":[{"name":"IDLab, Ghent University\u2014imec , 9050 Ghent, Belgium"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fabian","family":"M\u00fcntefering","sequence":"additional","affiliation":[{"name":"Institut f\u00fcr Informationsverarbeitung (TNT), Leibniz University Hannover , 30167 Hannover, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Liudmila S","family":"Mainzer","sequence":"additional","affiliation":[{"name":"National Center for Supercomputing Applications, University of Illinois at Urbana-Champaign , Urbana, IL 61801, USA"},{"name":"Carl R. 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