{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,5]],"date-time":"2026-03-05T06:59:55Z","timestamp":1772693995126,"version":"3.50.1"},"reference-count":19,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2021,1,1]],"date-time":"2021-01-01T00:00:00Z","timestamp":1609459200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Integrated Pharmacological Sciences Training"},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["T32GM062754"],"award-info":[{"award-number":["T32GM062754"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","award":["UM1 AI109565"],"award-info":[{"award-number":["UM1 AI109565"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"name":"AllerGenis LLC"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,4,9]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Analysis of epitope-specific antibody repertoires has provided novel insights into the pathogenesis of inflammatory disorders, especially allergies. A novel multiplex immunoassay, termed Bead-Based Epitope Assay (BBEA), was developed to quantify levels of epitope-specific immunoglobulins, including IgE, IgG, IgA and IgD isotypes. bbeaR is an open-source R package, developed for the BBEA, provides a framework to import, process and normalize .csv data files exported from the Luminex reader, evaluate various quality control metrics, analyze differential epitope-binding antibodies with linear modeling, visualize results and map epitopes\u2019 amino acid sequences to their respective primary protein structures. bbeaR enables streamlined and reproducible analysis of epitope-specific antibody profiles.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>bbeaR is open-source and freely available from GitHub as an R package: https:\/\/github.com\/msuprun\/bbeaR; vignettes included.<\/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\/btaa1064","type":"journal-article","created":{"date-parts":[[2021,1,16]],"date-time":"2021-01-16T20:14:05Z","timestamp":1610828045000},"page":"131-133","source":"Crossref","is-referenced-by-count":2,"title":["bbeaR: an R package and framework for epitope-specific antibody profiling"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9161-4021","authenticated-orcid":false,"given":"Maria","family":"Suprun","sequence":"first","affiliation":[{"name":"Department of Pediatrics, Allergy and Immunology, Icahn School of Medicine at Mount Sinai , New York, NY 10029, USA"}]},{"given":"Randall J","family":"Ellis","sequence":"additional","affiliation":[{"name":"Departments of Neuroscience and Psychiatry, Addiction Institute of Mount Sinai, Icahn School of Medicine at Mount Sinai , New York, NY 10029, USA"}]},{"given":"Hugh A","family":"Sampson","sequence":"additional","affiliation":[{"name":"Department of Pediatrics, Allergy and Immunology, Icahn School of Medicine at Mount Sinai , New York, NY 10029, USA"}]},{"given":"Mayte","family":"Su\u00e1rez-Fari\u00f1as","sequence":"additional","affiliation":[{"name":"Department of Population Health Science and Policy, Icahn School of Medicine at Mount Sinai , New York, NY 10029, USA"},{"name":"Department of Genetics and Genomic Sciences, Icahn Institute for Data Science and Genomic Technology, Icahn School of Medicine at Mount Sinai , New York, NY 10029, USA"}]}],"member":"286","published-online":{"date-parts":[[2021,1,20]]},"reference":[{"key":"2023051510473564700_btaa1064-B1","doi-asserted-by":"crossref","first-page":"4655","DOI":"10.1002\/jps.22700","article-title":"The impact of decreased bead count to determine concentrations of amyloid beta1-42, total-tau, and phosphorylated-tau181 in human cerebrospinal fluid using xMAP technology","volume":"100","author":"Bjornstal","year":"2011","journal-title":"J. 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