{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T08:17:59Z","timestamp":1772180279452,"version":"3.50.1"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"18","license":[{"start":{"date-parts":[[2019,2,13]],"date-time":"2019-02-13T00:00:00Z","timestamp":1550016000000},"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\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2018YFC0910504"],"award-info":[{"award-number":["2018YFC0910504"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2017YFC0907503"],"award-info":[{"award-number":["2017YFC0907503"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2017YFC1201201"],"award-info":[{"award-number":["2017YFC1201201"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>Mobile element insertion (MEI) is a major category of structure variations (SVs). The rapid development of long read sequencing technologies provides the opportunity to detect MEIs sensitively. However, the signals of MEI implied by noisy long reads are highly complex due to the repetitiveness of mobile elements as well as the high sequencing error rates. Herein, we propose the Realignment-based Mobile Element insertion detection Tool for Long read (rMETL). Benchmarking results of simulated and real datasets demonstrate that rMETL enables to handle the complex signals to discover MEIs sensitively. It is suited to produce high-quality MEI callsets in many genomics studies.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>rMETL is available from https:\/\/github.com\/hitbc\/rMETL.<\/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\/btz106","type":"journal-article","created":{"date-parts":[[2019,2,13]],"date-time":"2019-02-13T16:17:25Z","timestamp":1550074645000},"page":"3484-3486","source":"Crossref","is-referenced-by-count":20,"title":["rMETL: sensitive mobile element insertion detection with long read realignment"],"prefix":"10.1093","volume":"35","author":[{"given":"Tao","family":"Jiang","sequence":"first","affiliation":[{"name":"Center for Bioinformatics, School of Computer Science and Technology, Harbin Institute of Technology , Harbin, Heilongjiang, China"}]},{"given":"Bo","family":"Liu","sequence":"additional","affiliation":[{"name":"Center for Bioinformatics, School of Computer Science and Technology, Harbin Institute of Technology , Harbin, Heilongjiang, China"}]},{"given":"Junyi","family":"Li","sequence":"additional","affiliation":[{"name":"Center for Bioinformatics, School of Computer Science and Technology, Harbin Institute of Technology , Harbin, Heilongjiang, China"}]},{"given":"Yadong","family":"Wang","sequence":"additional","affiliation":[{"name":"Center for Bioinformatics, School of Computer Science and Technology, Harbin Institute of Technology , Harbin, Heilongjiang, China"}]}],"member":"286","published-online":{"date-parts":[[2019,2,13]]},"reference":[{"key":"2023013108053332700_btz106-B1","doi-asserted-by":"crossref","first-page":"1916","DOI":"10.1101\/gr.218032.116","article-title":"The Mobile Element Locator Tool (MELT): population-scale mobile element discovery and biology","volume":"27","author":"Gardner","year":"2017","journal-title":"Genome Res."},{"key":"2023013108053332700_btz106-B2","doi-asserted-by":"crossref","first-page":"338","DOI":"10.1038\/nbt.4060","article-title":"Nanopore sequencing and assembly of a human genome with ultra-long reads","volume":"36","author":"Jain","year":"2018","journal-title":"Nat. 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Biotechnol."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/18\/3484\/48975335\/bioinformatics_35_18_3484.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/18\/3484\/48975335\/bioinformatics_35_18_3484.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,31]],"date-time":"2023-01-31T08:41:03Z","timestamp":1675154463000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/35\/18\/3484\/5317164"}},"subtitle":[],"editor":[{"given":"Bonnie","family":"Berger","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2019,2,13]]},"references-count":10,"journal-issue":{"issue":"18","published-print":{"date-parts":[[2019,9,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btz106","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/421560","asserted-by":"object"}]},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2019,9,15]]},"published":{"date-parts":[[2019,2,13]]}}}