<> <http://www.w3.org/2000/01/rdf-schema#comment> "The repository administrator has not yet configured an RDF license."^^<http://www.w3.org/2001/XMLSchema#string> . <> <http://xmlns.com/foaf/0.1/primaryTopic> <https://discovery.ucl.ac.uk/id/eprint/1501080> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://purl.org/ontology/bibo/AcademicArticle> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://purl.org/ontology/bibo/Article> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/title> "Accurate sample assignment in a multiplexed, ultrasensitive, high-throughput sequencing assay for minimal residual disease"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/abstract> "High-throughput sequencing (HTS) (next-generation sequencing) of the rearranged Ig and T-cell receptor genes promises to be less expensive and more sensitive than current methods of monitoring minimal residual disease (MRD) in patients with acute lymphoblastic leukemia. However, the adoption of new approaches by clinical laboratories requires careful evaluation of all potential sources of error and the development of strategies to ensure the highest accuracy. Timely and efficient clinical use of HTS platforms will depend on combining multiple samples (multiplexing) in each sequencing run. Here we examine the Ig heavy-chain gene HTS on the Illumina MiSeq platform for MRD. We identify errors associated with multiplexing that could potentially impact the accuracy of MRD analysis. We optimize a strategy that combines high-purity, sequence-optimized oligonucleotides, dual indexing, and an error-aware demultiplexing approach to minimize errors and maximize sensitivity. We present a probability-based, demultiplexing pipeline Error-Aware Demultiplexer that is suitable for all MiSeq strategies and accurately assigns samples to the correct identifier without excessive loss of data. Finally, using controls quantified by digital PCR, we show that HTS-MRD can accurately detect as few as 1 in 10(6) copies of specific leukemic MRD."^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/date> "2016-05-13" . <https://discovery.ucl.ac.uk/id/document/232502> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://purl.org/ontology/bibo/Document> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/volume> "18" . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/issue> "4" . <https://discovery.ucl.ac.uk/id/publication/ext-19437811> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://purl.org/ontology/bibo/Collection> . <https://discovery.ucl.ac.uk/id/publication/ext-19437811> <http://xmlns.com/foaf/0.1/name> "Journal of Molecular Diagnostics"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/isPartOf> <https://discovery.ucl.ac.uk/id/publication/ext-19437811> . <https://discovery.ucl.ac.uk/id/publication/ext-19437811> <http://www.w3.org/2002/07/owl#sameAs> <urn:issn:19437811> . <https://discovery.ucl.ac.uk/id/publication/ext-19437811> <http://purl.org/ontology/bibo/issn> "19437811" . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/status> <http://purl.org/ontology/bibo/status/published> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-1f6e2a4852b8e68e3ec2add723ea40ee> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_1> <https://discovery.ucl.ac.uk/id/person/ext-1f6e2a4852b8e68e3ec2add723ea40ee> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-1057d1e9c5e9c8630bc0652fe48c84cf> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_2> <https://discovery.ucl.ac.uk/id/person/ext-1057d1e9c5e9c8630bc0652fe48c84cf> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-1462531356e77b3fd67b1099ee018003> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_3> <https://discovery.ucl.ac.uk/id/person/ext-1462531356e77b3fd67b1099ee018003> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-e5c79026ecebe2367ee39689f1a7bb19> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_4> <https://discovery.ucl.ac.uk/id/person/ext-e5c79026ecebe2367ee39689f1a7bb19> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-78e3283bf9fe6e24a63326192d31e34d> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_5> <https://discovery.ucl.ac.uk/id/person/ext-78e3283bf9fe6e24a63326192d31e34d> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-088f5a198ef504d1f03b9d4e5b871753> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_6> <https://discovery.ucl.ac.uk/id/person/ext-088f5a198ef504d1f03b9d4e5b871753> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-f490b8122f7929a1f88100f41034aa45> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_7> <https://discovery.ucl.ac.uk/id/person/ext-f490b8122f7929a1f88100f41034aa45> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-17fd50f209f3c9a200cb8dc81b3aa200> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_8> <https://discovery.ucl.ac.uk/id/person/ext-17fd50f209f3c9a200cb8dc81b3aa200> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/creator> <https://discovery.ucl.ac.uk/id/person/ext-dcb6104465f40ded4311c589e88b1825> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/ontology/bibo/authorList> <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> . <https://discovery.ucl.ac.uk/id/eprint/1501080#authors> <http://www.w3.org/1999/02/22-rdf-syntax-ns#_9> <https://discovery.ucl.ac.uk/id/person/ext-dcb6104465f40ded4311c589e88b1825> . <https://discovery.ucl.ac.uk/id/person/ext-1057d1e9c5e9c8630bc0652fe48c84cf> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-1057d1e9c5e9c8630bc0652fe48c84cf> <http://xmlns.com/foaf/0.1/givenName> "E"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1057d1e9c5e9c8630bc0652fe48c84cf> <http://xmlns.com/foaf/0.1/familyName> "Mountjoy"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1057d1e9c5e9c8630bc0652fe48c84cf> <http://xmlns.com/foaf/0.1/name> "E Mountjoy"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-17fd50f209f3c9a200cb8dc81b3aa200> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-17fd50f209f3c9a200cb8dc81b3aa200> <http://xmlns.com/foaf/0.1/givenName> "N"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-17fd50f209f3c9a200cb8dc81b3aa200> <http://xmlns.com/foaf/0.1/familyName> "Goulden"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-17fd50f209f3c9a200cb8dc81b3aa200> <http://xmlns.com/foaf/0.1/name> "N Goulden"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-78e3283bf9fe6e24a63326192d31e34d> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-78e3283bf9fe6e24a63326192d31e34d> <http://xmlns.com/foaf/0.1/givenName> "H"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-78e3283bf9fe6e24a63326192d31e34d> <http://xmlns.com/foaf/0.1/familyName> "Williamson"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-78e3283bf9fe6e24a63326192d31e34d> <http://xmlns.com/foaf/0.1/name> "H Williamson"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-dcb6104465f40ded4311c589e88b1825> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-dcb6104465f40ded4311c589e88b1825> <http://xmlns.com/foaf/0.1/givenName> "M"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-dcb6104465f40ded4311c589e88b1825> <http://xmlns.com/foaf/0.1/familyName> "Hubank"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-dcb6104465f40ded4311c589e88b1825> <http://xmlns.com/foaf/0.1/name> "M Hubank"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-f490b8122f7929a1f88100f41034aa45> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-f490b8122f7929a1f88100f41034aa45> <http://xmlns.com/foaf/0.1/givenName> "J"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-f490b8122f7929a1f88100f41034aa45> <http://xmlns.com/foaf/0.1/familyName> "Moppett"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-f490b8122f7929a1f88100f41034aa45> <http://xmlns.com/foaf/0.1/name> "J Moppett"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-088f5a198ef504d1f03b9d4e5b871753> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-088f5a198ef504d1f03b9d4e5b871753> <http://xmlns.com/foaf/0.1/givenName> "G"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-088f5a198ef504d1f03b9d4e5b871753> <http://xmlns.com/foaf/0.1/familyName> "Wright"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-088f5a198ef504d1f03b9d4e5b871753> <http://xmlns.com/foaf/0.1/name> "G Wright"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1f6e2a4852b8e68e3ec2add723ea40ee> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-1f6e2a4852b8e68e3ec2add723ea40ee> <http://xmlns.com/foaf/0.1/givenName> "J"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1f6e2a4852b8e68e3ec2add723ea40ee> <http://xmlns.com/foaf/0.1/familyName> "Bartram"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1f6e2a4852b8e68e3ec2add723ea40ee> <http://xmlns.com/foaf/0.1/name> "J Bartram"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-e5c79026ecebe2367ee39689f1a7bb19> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-e5c79026ecebe2367ee39689f1a7bb19> <http://xmlns.com/foaf/0.1/givenName> "J"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-e5c79026ecebe2367ee39689f1a7bb19> <http://xmlns.com/foaf/0.1/familyName> "Hancock"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-e5c79026ecebe2367ee39689f1a7bb19> <http://xmlns.com/foaf/0.1/name> "J Hancock"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1462531356e77b3fd67b1099ee018003> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://xmlns.com/foaf/0.1/Person> . <https://discovery.ucl.ac.uk/id/person/ext-1462531356e77b3fd67b1099ee018003> <http://xmlns.com/foaf/0.1/givenName> "T"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1462531356e77b3fd67b1099ee018003> <http://xmlns.com/foaf/0.1/familyName> "Brooks"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/person/ext-1462531356e77b3fd67b1099ee018003> <http://xmlns.com/foaf/0.1/name> "T Brooks"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://eprints.org/ontology/EPrint> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://eprints.org/ontology/ArticleEPrint> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/terms/isPartOf> <https://discovery.ucl.ac.uk/id/repository> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://eprints.org/ontology/hasDocument> <https://discovery.ucl.ac.uk/id/document/232502> . <https://discovery.ucl.ac.uk/id/document/232502> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://eprints.org/ontology/Document> . <https://discovery.ucl.ac.uk/id/document/232502> <http://www.w3.org/2000/01/rdf-schema#label> "Accurate sample assignment in a multiplexed, ultrasensitive, high-throughput sequencing assay for minimal residual disease (Text)"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://purl.org/dc/elements/1.1/hasVersion> <https://discovery.ucl.ac.uk/id/document/232502> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://eprints.org/ontology/hasAccepted> <https://discovery.ucl.ac.uk/id/document/232502> . <https://discovery.ucl.ac.uk/id/document/232502> <http://eprints.org/ontology/hasFile> <https://discovery.ucl.ac.uk/id/eprint/1501080/1/Bartram_JMolDiagnostics_final.pdf> . <https://discovery.ucl.ac.uk/id/document/232502> <http://purl.org/dc/terms/hasPart> <https://discovery.ucl.ac.uk/id/eprint/1501080/1/Bartram_JMolDiagnostics_final.pdf> . <https://discovery.ucl.ac.uk/id/eprint/1501080/1/Bartram_JMolDiagnostics_final.pdf> <http://www.w3.org/2000/01/rdf-schema#label> "Bartram_JMolDiagnostics_final.pdf"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/eprint/1501080> <http://eprints.org/ontology/hasDocument> <https://discovery.ucl.ac.uk/id/document/232504> . <https://discovery.ucl.ac.uk/id/document/232504> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://eprints.org/ontology/Document> . <https://discovery.ucl.ac.uk/id/document/232504> <http://www.w3.org/2000/01/rdf-schema#label> "Accurate sample assignment in a multiplexed, ultrasensitive, high-throughput sequencing assay for minimal residual disease (Other)"^^<http://www.w3.org/2001/XMLSchema#string> . <https://discovery.ucl.ac.uk/id/document/232504> <http://eprints.org/relation/isVersionOf> <https://discovery.ucl.ac.uk/id/document/232502> . <https://discovery.ucl.ac.uk/id/document/232504> <http://eprints.org/relation/isVolatileVersionOf> <https://discovery.ucl.ac.uk/id/document/232502> . <https://discovery.ucl.ac.uk/id/document/232504> <http://eprints.org/relation/ispreviewThumbnailVersionOf> <https://discovery.ucl.ac.uk/id/document/232502> . <https://discovery.ucl.ac.uk/id/eprint/1501080> 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