{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,6]],"date-time":"2026-06-06T05:51:30Z","timestamp":1780725090497,"version":"3.54.1"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"16","license":[{"start":{"date-parts":[[2020,6,24]],"date-time":"2020-06-24T00:00:00Z","timestamp":1592956800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001870","name":"Foundation of Polish Science","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100001870","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,8,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Hydrogen\u2013deuterium mass spectrometry (HDX-MS) is a rapidly developing technique for monitoring dynamics and interactions of proteins. The development of new devices has to be followed with new software suites addressing emerging standards in data analysis.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>We propose HaDeX, a novel tool for processing, analysis and visualization of HDX-MS experiments. HaDeX supports a reproducible analytical process, including data exploration, quality control and generation of publication-quality figures.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>HaDeX is available primarily as a web-server (http:\/\/mslab-ibb.pl\/shiny\/HaDeX\/), but its all functionalities are also accessible as the R package (https:\/\/CRAN.R-project.org\/package=HaDeX) and standalone software (https:\/\/sourceforge.net\/projects\/HaDeX\/).<\/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\/btaa587","type":"journal-article","created":{"date-parts":[[2020,6,16]],"date-time":"2020-06-16T11:10:00Z","timestamp":1592305800000},"page":"4516-4518","source":"Crossref","is-referenced-by-count":30,"title":["HaDeX: an R package and web-server for analysis of data from hydrogen\u2013deuterium exchange mass spectrometry experiments"],"prefix":"10.1093","volume":"36","author":[{"given":"Weronika","family":"Pucha\u0142a","sequence":"first","affiliation":[{"name":"Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8926-582X","authenticated-orcid":false,"given":"Micha\u0142","family":"Burdukiewicz","sequence":"additional","affiliation":[{"name":"Faculty of Mathematics and Information Science, Warsaw University of Technology , Warsaw 00-662, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Micha\u0142","family":"Kistowski","sequence":"additional","affiliation":[{"name":"Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Katarzyna A","family":"D\u0105browska","sequence":"additional","affiliation":[{"name":"Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1832-4364","authenticated-orcid":false,"given":"Aleksandra E","family":"Badaczewska-Dawid","sequence":"additional","affiliation":[{"name":"Faculty of Chemistry, Biological and Chemical Research Center, University of Warsaw , Warsaw 02-093, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6206-0672","authenticated-orcid":false,"given":"Dominik","family":"Cysewski","sequence":"additional","affiliation":[{"name":"Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Micha\u0142","family":"Dadlez","sequence":"additional","affiliation":[{"name":"Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106, Poland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2020,6,24]]},"reference":[{"key":"2023062213535191300_btaa587-B1","doi-asserted-by":"crossref","first-page":"5331","DOI":"10.1093\/bioinformatics\/btz550","article-title":"HDX-Viewer: interactive 3D visualization of hydrogen\u2013deuterium exchange data","volume":"35","author":"Bouyssi\u00e9","year":"2019","journal-title":"Bioinformatics"},{"key":"2023062213535191300_btaa587-B2","doi-asserted-by":"crossref","first-page":"649","DOI":"10.1002\/mas.21519","article-title":"Computational methods and challenges in hydrogen\/deuterium exchange mass spectrometry","volume":"36","author":"Claesen","year":"2017","journal-title":"Mass Spectr. 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