{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,3]],"date-time":"2026-06-03T04:23:04Z","timestamp":1780460584879,"version":"3.54.1"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2016,11,26]],"date-time":"2016-11-26T00:00:00Z","timestamp":1480118400000},"content-version":"vor","delay-in-days":55,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Institute of Allergy and Infectious Diseases, National Institutes of Health","award":["U19AI109946"],"award-info":[{"award-number":["U19AI109946"]}]},{"name":"National Institute of Allergy and Infectious Diseases, National Institutes of Health","award":["U19AI057266"],"award-info":[{"award-number":["U19AI057266"]}]},{"name":"National Institute of Allergy and Infectious Diseases, National Institutes of Health","award":["U19AI082724"],"award-info":[{"award-number":["U19AI082724"]}]},{"name":"National Institute of Allergy and Infectious Diseases, National Institutes of Health","award":["T32AI007090"],"award-info":[{"award-number":["T32AI007090"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,2,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>The B-cell receptor enables individual B cells to identify diverse antigens, including bacterial and viral proteins. While advances in RNA-sequencing (RNA-seq) have enabled high throughput profiling of transcript expression in single cells, the unique task of assembling the full-length heavy and light chain sequences from single cell RNA-seq (scRNA-seq) in B cells has been largely unstudied.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We developed a new software tool, BASIC, which allows investigators to use scRNA-seq for assembling BCR sequences at single-cell resolution. To demonstrate the utility of our software, we subjected nearly 200 single human B cells to scRNA-seq, assembled the full-length heavy and the light chains, and experimentally confirmed these results by using single-cell primer-based nested PCRs and Sanger sequencing.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and Implementation<\/jats:title>\n                  <jats:p>http:\/\/ttic.uchicago.edu\/\u223caakhan\/BASIC<\/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\/btw631","type":"journal-article","created":{"date-parts":[[2016,9,30]],"date-time":"2016-09-30T03:06:29Z","timestamp":1475204789000},"page":"425-427","source":"Crossref","is-referenced-by-count":100,"title":["BASIC: BCR assembly from single cells"],"prefix":"10.1093","volume":"33","author":[{"given":"Stefan","family":"Canzar","sequence":"first","affiliation":[{"name":"Toyota Technological Institute at Chicago, The University of Chicago, Chicago, IL, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Karlynn E","family":"Neu","sequence":"additional","affiliation":[{"name":"Committee on Immunology, The Knapp Center of Lupus and Immunology Research, The University of Chicago, Chicago, IL, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qingming","family":"Tang","sequence":"additional","affiliation":[{"name":"Toyota Technological Institute at Chicago, The University of Chicago, Chicago, IL, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Patrick C","family":"Wilson","sequence":"additional","affiliation":[{"name":"Committee on Immunology, The Knapp Center of Lupus and Immunology Research, The University of Chicago, Chicago, IL, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aly A","family":"Khan","sequence":"additional","affiliation":[{"name":"Toyota Technological Institute at Chicago, The University of Chicago, Chicago, IL, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2016,10,2]]},"reference":[{"key":"2023020204403948800_btw631-B1","doi-asserted-by":"crossref","first-page":"639","DOI":"10.1146\/annurev.bi.44.070175.003231","article-title":"Three-dimensional structure of immunoglobulins","volume":"44","author":"Davies","year":"1975","journal-title":"Ann. 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