{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,11]],"date-time":"2026-04-11T08:49:09Z","timestamp":1775897349226,"version":"3.50.1"},"reference-count":11,"publisher":"Oxford University Press (OUP)","issue":"21","license":[{"start":{"date-parts":[[2019,5,9]],"date-time":"2019-05-09T00:00:00Z","timestamp":1557360000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,11,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>We introduce the Barcode-UMI-Set format (BUS) for representing pseudoalignments of reads from single-cell RNA-seq experiments. The format can be used with all single-cell RNA-seq technologies, and we show that BUS files can be efficiently generated. BUStools is a suite of tools for working with BUS files and facilitates rapid quantification and analysis of single-cell RNA-seq data. The BUS format therefore makes possible the development of modular, technology-specific and robust workflows for single-cell RNA-seq analysis.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>http:\/\/BUStools.github.io\/ and http:\/\/pachterlab.github.io\/kallisto\/singlecell.html.<\/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\/btz279","type":"journal-article","created":{"date-parts":[[2019,4,13]],"date-time":"2019-04-13T15:13:24Z","timestamp":1555168404000},"page":"4472-4473","source":"Crossref","is-referenced-by-count":154,"title":["The barcode, UMI, set format and BUStools"],"prefix":"10.1093","volume":"35","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-8418-6724","authenticated-orcid":false,"given":"P\u00e1ll","family":"Melsted","sequence":"first","affiliation":[{"name":"Faculty of Industrial Engineering, Mechanical Engineering and Computer Science, University of Iceland , Reykjavik, Iceland"}]},{"given":"Vasilis","family":"Ntranos","sequence":"additional","affiliation":[{"name":"Division of Biology and Biological Engineering, California Institute of Technology , Pasadena, CA, USA"}]},{"given":"Lior","family":"Pachter","sequence":"additional","affiliation":[{"name":"Division of Biology and Biological Engineering, California Institute of Technology , Pasadena, CA, USA"},{"name":"Department of Computing & Mathematical Sciences, California Institute of Technology , Pasadena, CA, USA"}]}],"member":"286","published-online":{"date-parts":[[2019,5,9]]},"reference":[{"key":"2023062712535053500_btz279-B1","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1038\/nbt.3519","article-title":"Near-optimal probabilistic RNA-seq quantification","volume":"34","author":"Bray","year":"2016","journal-title":"Nat. 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