{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,15]],"date-time":"2026-04-15T00:52:13Z","timestamp":1776214333297,"version":"3.50.1"},"reference-count":20,"publisher":"Oxford University Press (OUP)","issue":"22","license":[{"start":{"date-parts":[[2021,5,17]],"date-time":"2021-05-17T00:00:00Z","timestamp":1621209600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/100004917","name":"Cancer Prevention and Research Institute of Texas","doi-asserted-by":"publisher","award":["RP190451"],"award-info":[{"award-number":["RP190451"]}],"id":[{"id":"10.13039\/100004917","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["DP2GM128203"],"award-info":[{"award-number":["DP2GM128203"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000928","name":"Welch Foundation","doi-asserted-by":"publisher","award":["I-1926-20170325"],"award-info":[{"award-number":["I-1926-20170325"]}],"id":[{"id":"10.13039\/100000928","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000861","name":"Burroughs Wellcome Fund","doi-asserted-by":"publisher","award":["1019804"],"award-info":[{"award-number":["1019804"]}],"id":[{"id":"10.13039\/100000861","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Green Center for Reproductive Biology"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,11,18]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Single cell RNA-Seq (scRNA-Seq) has broadened our understanding of cellular heterogeneity and provided valuable insights into cellular functions. Recent experimental strategies extend scRNA-Seq readouts to include additional features, including cell surface proteins and genomic perturbations. These \u2018feature barcoding\u2019 strategies rely on converting molecular and cellular features to unique sequence barcodes, which are then detected with the transcriptome.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>Here, we introduce FBA, a flexible and streamlined package to perform quality control, quantification, demultiplexing, multiplet detection, clustering and visualization of feature barcoding assays.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availabilityand implementation<\/jats:title>\n                    <jats:p>FBA is available on PyPi at https:\/\/pypi.org\/project\/fba and on GitHub at https:\/\/github.com\/jlduan\/fba.<\/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\/btab375","type":"journal-article","created":{"date-parts":[[2021,5,15]],"date-time":"2021-05-15T07:15:45Z","timestamp":1621062945000},"page":"4266-4268","source":"Crossref","is-referenced-by-count":14,"title":["FBA: feature barcoding analysis for single cell RNA-Seq"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4086-7461","authenticated-orcid":false,"given":"Jialei","family":"Duan","sequence":"first","affiliation":[{"name":"The Green Center, Tecil H. and Ida Green Center for Reproductive Biology Sciences , Dallas, TX, 75390,","place":["USA"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1615-0391","authenticated-orcid":false,"given":"Gary C","family":"Hon","sequence":"additional","affiliation":[{"name":"The Green Center, Tecil H. and Ida Green Center for Reproductive Biology Sciences , Dallas, TX, 75390,","place":["USA"]},{"name":"Division of Basic Reproductive Biology Research, Department of Obstetrics and Gynecology, Department of Bioinformatics, University of Texas Southwestern Medical Center , Dallas, TX, 75390,","place":["USA"]}]}],"member":"286","published-online":{"date-parts":[[2021,5,17]]},"reference":[{"key":"2026041420022515900_btab375-B17","author":"Bocek","year":"2007"},{"key":"2026041420022515900_btab375-B18","doi-asserted-by":"crossref","first-page":"160","DOI":"10.1007\/978-3-642-37456-2_14","volume-title":"Advances in Knowledge Discovery and Data Mining","author":"Campello","year":"2013"},{"key":"2026041420022515900_btab375-B1","doi-asserted-by":"crossref","first-page":"297","DOI":"10.1038\/nmeth.4177","article-title":"Pooled CRISPR screening with single-cell transcriptome readout","volume":"14","author":"Datlinger","year":"2017","journal-title":"Nat. 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