{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:57Z","timestamp":1772138097919,"version":"3.50.1"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2019,10,3]],"date-time":"2019-10-03T00:00:00Z","timestamp":1570060800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/100008762","name":"Genome Canada","doi-asserted-by":"publisher","award":["OGI-138"],"award-info":[{"award-number":["OGI-138"]}],"id":[{"id":"10.13039\/100008762","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Natural Sciences and Engineering Council of Canada","award":["2015-03742"],"award-info":[{"award-number":["2015-03742"]}]},{"name":"UK10K Consortium"},{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["WT091310"],"award-info":[{"award-number":["WT091310"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,2,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>Integration of next generation sequencing data (NGS) across different research studies can improve the power of genetic association testing by increasing sample size and can obviate the need for sequencing controls. If differential genotype uncertainty across studies is not accounted for, combining datasets can produce spurious association results. We developed the Variant Integration Kit for NGS (VikNGS), a fast cross-platform software package, to enable aggregation of several datasets for rare and common variant genetic association analysis of quantitative and binary traits with covariate adjustment. VikNGS also includes a graphical user interface, power simulation functionality and data visualization tools.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>The VikNGS package can be downloaded at http:\/\/www.tcag.ca\/tools\/index.html.<\/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\/btz716","type":"journal-article","created":{"date-parts":[[2019,9,26]],"date-time":"2019-09-26T07:28:48Z","timestamp":1569482928000},"page":"1283-1285","source":"Crossref","is-referenced-by-count":7,"title":["VikNGS: a C++ variant integration kit for next generation sequencing association analysis"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0714-7406","authenticated-orcid":false,"given":"Zeynep","family":"Baskurt","sequence":"first","affiliation":[{"name":"Program in Genetics and Genome Biology, Research Institute, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"The Centre for Applied Genomics, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Scott","family":"Mastromatteo","sequence":"additional","affiliation":[{"name":"Program in Genetics and Genome Biology, Research Institute, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"The Centre for Applied Genomics, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jiafen","family":"Gong","sequence":"additional","affiliation":[{"name":"Program in Genetics and Genome Biology, Research Institute, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"The Centre for Applied Genomics, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Richard F","family":"Wintle","sequence":"additional","affiliation":[{"name":"Program in Genetics and Genome Biology, Research Institute, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"The Centre for Applied Genomics, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Stephen W","family":"Scherer","sequence":"additional","affiliation":[{"name":"Program in Genetics and Genome Biology, Research Institute, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"The Centre for Applied Genomics, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"McLaughlin Centre and Department of Molecular Genetics, University of Toronto , Toronto, ON M5G 0A4, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lisa J","family":"Strug","sequence":"additional","affiliation":[{"name":"Program in Genetics and Genome Biology, Research Institute, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"The Centre for Applied Genomics, The Hospital for Sick Children , Toronto, ON M5G0A4, Canada"},{"name":"Division of Biostatistics and Department of Statistical Sciences, University of Toronto , Toronto, ON, M5T3M7, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2019,10,3]]},"reference":[{"key":"2023013110153792100_btz716-B1","doi-asserted-by":"crossref","first-page":"2179","DOI":"10.1093\/bioinformatics\/btu196","article-title":"Association analysis using next-generation sequence data from publicly available control groups: the robust variance score statistic","volume":"30","author":"Derkach","year":"2014","journal-title":"Bioinformatics"},{"key":"2023013110153792100_btz716-B2","doi-asserted-by":"crossref","first-page":"e1006040","DOI":"10.1371\/journal.pgen.1006040","article-title":"Testing rare variant association without calling genotypes allows for systematic differences in sequencing between cases and controls","volume":"12","author":"Hu","year":"2016","journal-title":"PLoS Genet"},{"key":"2023013110153792100_btz716-B3","doi-asserted-by":"crossref","first-page":"1073","DOI":"10.1126\/science.2570460","article-title":"Identification of the cystic fibrosis gene: genetic analysis","volume":"245","author":"Kerem","year":"1989","journal-title":"Science"},{"key":"2023013110153792100_btz716-B4","doi-asserted-by":"crossref","first-page":"375","DOI":"10.1002\/gepi.22048","article-title":"PhredEM: a phred-score-informed genotype-calling approach for next-generation sequencing studies","volume":"41","author":"Liao","year":"2017","journal-title":"Genet. 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