{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,26]],"date-time":"2025-10-26T21:28:14Z","timestamp":1761514094930,"version":"3.37.3"},"reference-count":8,"publisher":"Oxford University Press (OUP)","issue":"7","license":[{"start":{"date-parts":[[2017,11,6]],"date-time":"2017-11-06T00:00:00Z","timestamp":1509926400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"funder":[{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007431","name":"NRF","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100007431","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003710","name":"Korea Health Industry Development Institute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003710","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100008005","name":"Yonsei University College of Medicine","doi-asserted-by":"publisher","award":["6-2016-0081"],"award-info":[{"award-number":["6-2016-0081"]}],"id":[{"id":"10.13039\/501100008005","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,4,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Ion Torrent sequencing is one of the most frequently used platforms in healthcare research and industry. Despite many advantages, platform-specific artifacts complicate efficient separation of true variants from errors, especially in variants with lower allele frequencies (&amp;lt;15%). Here, we developed a multi-step filtering toolbox AIRVF that works on flowgram, raw and mapped reads and called variants to reduce artifact-driven false variant calls. Tests on sequencing data of standard reference material showed up to \u223c98% reduction of false variants when combined to conventional public pipelines and \u223c48% to the in-house commercial solution, with a minimal loss of sensitivity.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The program with a detailed manual is available at https:\/\/sourceforge.net\/projects\/airvf\/.<\/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\/btx719","type":"journal-article","created":{"date-parts":[[2017,11,4]],"date-time":"2017-11-04T04:14:03Z","timestamp":1509768843000},"page":"1232-1234","source":"Crossref","is-referenced-by-count":3,"title":["AIRVF: a filtering toolbox for precise variant calling in Ion Torrent sequencing"],"prefix":"10.1093","volume":"34","author":[{"given":"Sunguk","family":"Shin","sequence":"first","affiliation":[{"name":"Severance Biomedical Science Institute, Yonsei University College of Medicine, Seoul, South Korea"}]},{"given":"Hanna","family":"Lee","sequence":"additional","affiliation":[{"name":"Severance Biomedical Science Institute, Yonsei University College of Medicine, Seoul, South Korea"}]},{"given":"Hyeonju","family":"Son","sequence":"additional","affiliation":[{"name":"Severance Biomedical Science Institute, Yonsei University College of Medicine, Seoul, South Korea"},{"name":"Brain Korea 21 PLUS Project for Medical Science, Yonsei University College of Medicine, Seoul, South Korea"}]},{"given":"Soonmyung","family":"Paik","sequence":"additional","affiliation":[{"name":"Severance Biomedical Science Institute, Yonsei University College of Medicine, Seoul, South Korea"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5356-0827","authenticated-orcid":false,"given":"Sangwoo","family":"Kim","sequence":"additional","affiliation":[{"name":"Severance Biomedical Science Institute, Yonsei University College of Medicine, Seoul, South Korea"}]}],"member":"286","published-online":{"date-parts":[[2017,11,6]]},"reference":[{"key":"2023012712574376700_btx719-B1","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1038\/nbt.2514","article-title":"Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples","volume":"31","author":"Cibulskis","year":"2013","journal-title":"Nat. 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