{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:00Z","timestamp":1772138040620,"version":"3.50.1"},"reference-count":15,"publisher":"Oxford University Press (OUP)","issue":"13","license":[{"start":{"date-parts":[[2020,10,17]],"date-time":"2020-10-17T00:00:00Z","timestamp":1602892800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Informatics Technology for Cancer Research (ITCR) program of the National Institutes of Health","award":["1R21CA220411-01A1"],"award-info":[{"award-number":["1R21CA220411-01A1"]}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,7,27]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>We present a new version of the popular somatic variant caller, Lancet, that supports the analysis of linked-reads sequencing data. By seamlessly integrating barcodes and haplotype read assignments within the colored De Bruijn graph local-assembly framework, Lancet computes a barcode-aware coverage and identifies variants that disagree with the local haplotype structure.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Lancet is implemented in C++ and available for academic and non-commercial research purposes as an open-source package at https:\/\/github.com\/nygenome\/lancet.<\/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\/btaa888","type":"journal-article","created":{"date-parts":[[2020,10,2]],"date-time":"2020-10-02T15:11:58Z","timestamp":1601651518000},"page":"1918-1919","source":"Crossref","is-referenced-by-count":3,"title":["Somatic variant analysis of linked-reads sequencing data with Lancet"],"prefix":"10.1093","volume":"37","author":[{"given":"Rajeeva","family":"Musunuri","sequence":"first","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]},{"given":"Kanika","family":"Arora","sequence":"additional","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]},{"given":"Andr\u00e9","family":"Corvelo","sequence":"additional","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]},{"given":"Minita","family":"Shah","sequence":"additional","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]},{"given":"Jennifer","family":"Shelton","sequence":"additional","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]},{"given":"Michael C","family":"Zody","sequence":"additional","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1118-8849","authenticated-orcid":false,"given":"Giuseppe","family":"Narzisi","sequence":"additional","affiliation":[{"name":"Computational Biology Lab, New York Genome Center , New York, NY 10013, USA"}]}],"member":"286","published-online":{"date-parts":[[2020,10,17]]},"reference":[{"key":"2023051611463551400_btaa888-B1","doi-asserted-by":"crossref","first-page":"19123","DOI":"10.1038\/s41598-019-55636-3","article-title":"Deep whole-genome sequencing of 3 cancer cell lines on 2 sequencing platforms","volume":"9","author":"Arora","year":"2019","journal-title":"Sci. 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