{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,21]],"date-time":"2025-02-21T14:01:34Z","timestamp":1740146494189,"version":"3.37.3"},"reference-count":12,"publisher":"Public Library of Science (PLoS)","issue":"12","license":[{"start":{"date-parts":[[2018,12,5]],"date-time":"2018-12-05T00:00:00Z","timestamp":1543968000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100007793","name":"Stiftelsen Kristian Gerhard Jebsen","doi-asserted-by":"publisher","award":["SKGJ-MED-017"],"award-info":[{"award-number":["SKGJ-MED-017"]}],"id":[{"id":"10.13039\/100007793","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005416","name":"Norges Forskningsr\u00e5d","doi-asserted-by":"publisher","award":["179573\/V40"],"award-info":[{"award-number":["179573\/V40"]}],"id":[{"id":"10.13039\/501100005416","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007793","name":"Stiftelsen Kristian Gerhard Jebsen","doi-asserted-by":"publisher","award":["SKGJ-MED-017"],"award-info":[{"award-number":["SKGJ-MED-017"]}],"id":[{"id":"10.13039\/100007793","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005416","name":"Norges Forskningsr\u00e5d","doi-asserted-by":"publisher","award":["179573\/V40"],"award-info":[{"award-number":["179573\/V40"]}],"id":[{"id":"10.13039\/501100005416","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005416","name":"Norges Forskningsr\u00e5d","doi-asserted-by":"publisher","award":["179573\/V40"],"award-info":[{"award-number":["179573\/V40"]}],"id":[{"id":"10.13039\/501100005416","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007793","name":"Stiftelsen Kristian Gerhard Jebsen","doi-asserted-by":"publisher","award":["SKGJ-MED-017"],"award-info":[{"award-number":["SKGJ-MED-017"]}],"id":[{"id":"10.13039\/100007793","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0208484","type":"journal-article","created":{"date-parts":[[2018,12,5]],"date-time":"2018-12-05T13:39:45Z","timestamp":1544017185000},"page":"e0208484","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":4,"title":["Exploiting antigen receptor information to quantify index switching in single-cell transcriptome sequencing experiments"],"prefix":"10.1371","volume":"13","author":[{"given":"Ying","family":"Yao","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Asima","family":"Zia","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"\u0141ukasz","family":"Wyro\u017cemski","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8343-2842","authenticated-orcid":true,"given":"Ida","family":"Lindeman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Geir Kjetil","family":"Sandve","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8679-1557","authenticated-orcid":true,"given":"Shuo-Wang","family":"Qiao","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2018,12,5]]},"reference":[{"key":"ref1","article-title":"Index Switching Causes \u201cSpreading-Of-Signal\u201d Among Multiplexed Samples In Illumina HiSeq 4000 DNA Sequencing","author":"R Sinha","year":"2017","journal-title":"bioRxiv"},{"key":"ref2","unstructured":"Effects of Index Misassignment on Multiplexing and Downstream Analysis [Internet]. Illumina, Inc.; <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"https:\/\/www.illumina.com\/content\/dam\/illumina-marketing\/documents\/products\/whitepapers\/index-hopping-white-paper-770-2017-004.pdf\" xlink:type=\"simple\">https:\/\/www.illumina.com\/content\/dam\/illumina-marketing\/documents\/products\/whitepapers\/index-hopping-white-paper-770-2017-004.pdf<\/ext-link>"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"e3","DOI":"10.1093\/nar\/gkr771","article-title":"Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform","volume":"40","author":"M Kircher","year":"2012","journal-title":"Nucleic Acids Res"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"2151","DOI":"10.1084\/jem.188.11.2151","article-title":"The complete nucleotide sequence of the human immunoglobulin heavy chain variable region locus","volume":"188","author":"F Matsuda","year":"1998","journal-title":"J Exp Med"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"4602","DOI":"10.1182\/blood-2003-11-3857","article-title":"Utilization of Ig heavy chain variable, diversity, and joining gene segments in children with B-lineage acute lymphoblastic leukemia: implications for the mechanisms of VDJ recombination and for pathogenesis","volume":"103","author":"A Li","year":"2004","journal-title":"Blood"},{"key":"ref6","doi-asserted-by":"crossref","DOI":"10.1201\/9781317511571","article-title":"The Immune System","author":"P Parham","year":"2014"},{"key":"ref7","first-page":"179028","article-title":"Low rate of index hopping on the Illumina HiSeq X platform","author":"T van der Valk","year":"2017","journal-title":"bioRxiv"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1038\/nprot.2014.006","article-title":"Full-length RNA-seq from single cells using Smart-seq2","volume":"9","author":"S Picelli","year":"2014","journal-title":"Nature Protocols"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1038\/nbt.3519","article-title":"Near-optimal probabilistic RNA-seq quantification","volume":"34","author":"NL Bray","year":"2016","journal-title":"Nature Biotechnology"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"329","DOI":"10.1038\/nmeth.3800","article-title":"T cell fate and clonality inference from single-cell transcriptomes","volume":"13","author":"MJT Stubbington","year":"2016","journal-title":"Nat Meth"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"563","DOI":"10.1038\/s41592-018-0082-3","article-title":"BraCeR: B-cell-receptor reconstruction and clonality inference from single-cell RNA-seq","volume":"15","author":"I Lindeman","year":"2018","journal-title":"Nature Methods"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"644","DOI":"10.1038\/nbt.1883","article-title":"Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data","volume":"29","author":"MG Grabherr","year":"2011","journal-title":"Nat Biotechnol"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0208484","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,5,8]],"date-time":"2020-05-08T19:04:03Z","timestamp":1588964643000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0208484"}},"subtitle":[],"editor":[{"given":"Stephen J","family":"Turner","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2018,12,5]]},"references-count":12,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2018,12,5]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0208484","relation":{},"ISSN":["1932-6203"],"issn-type":[{"type":"electronic","value":"1932-6203"}],"subject":[],"published":{"date-parts":[[2018,12,5]]}}}