{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,8]],"date-time":"2026-02-08T18:38:38Z","timestamp":1770575918621,"version":"3.49.0"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"14","license":[{"start":{"date-parts":[[2016,10,1]],"date-time":"2016-10-01T00:00:00Z","timestamp":1475280000000},"content-version":"vor","delay-in-days":2297,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,7,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: The accuracy of reference genomes is important for downstream analysis but a low error rate requires expensive manual interrogation of the sequence. Here, we describe a novel algorithm (Iterative Correction of Reference Nucleotides) that iteratively aligns deep coverage of short sequencing reads to correct errors in reference genome sequences and evaluate their accuracy.<\/jats:p>\n               <jats:p>Results: Using Plasmodium falciparum (81% A + T content) as an extreme example, we show that the algorithm is highly accurate and corrects over 2000 errors in the reference sequence. We give examples of its application to numerous other eukaryotic and prokaryotic genomes and suggest additional applications.<\/jats:p>\n               <jats:p>Availability: The software is available at http:\/\/icorn.sourceforge.net<\/jats:p>\n               <jats:p>Contact: \u00a0tdo@sanger.ac.uk; cnewbold@hammer.imm.ox.ac.uk<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq269","type":"journal-article","created":{"date-parts":[[2010,6,20]],"date-time":"2010-06-20T23:54:25Z","timestamp":1277078065000},"page":"1704-1707","source":"Crossref","is-referenced-by-count":205,"title":["Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology"],"prefix":"10.1093","volume":"26","author":[{"given":"Thomas D.","family":"Otto","sequence":"first","affiliation":[{"name":"1 Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA and 2 Weatherall Institute of Molecular Medicine, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DS, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mandy","family":"Sanders","sequence":"additional","affiliation":[{"name":"1 Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA and 2 Weatherall Institute of Molecular Medicine, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DS, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Matthew","family":"Berriman","sequence":"additional","affiliation":[{"name":"1 Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA and 2 Weatherall Institute of Molecular Medicine, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DS, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chris","family":"Newbold","sequence":"additional","affiliation":[{"name":"1 Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA and 2 Weatherall Institute of Molecular Medicine, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DS, UK"},{"name":"1 Parasite Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA and 2 Weatherall Institute of Molecular Medicine, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DS, UK"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2010,6,18]]},"reference":[{"key":"2023012507581333300_B1","doi-asserted-by":"crossref","first-page":"2672","DOI":"10.1093\/bioinformatics\/btn529","article-title":"Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database","volume":"24","author":"Carver","year":"2008","journal-title":"Bioinformatics"},{"key":"2023012507581333300_B2","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/j.jbiotec.2008.03.021","article-title":"The Genome Sequencer FLX\u2122 System\u2014longer reads, more applications, straight forward bioinformatics and more complete data sets","volume":"136","author":"Droege","year":"2008","journal-title":"J. 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