{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,8]],"date-time":"2026-03-08T10:04:55Z","timestamp":1772964295235,"version":"3.50.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2021,2,4]],"date-time":"2021-02-04T00:00:00Z","timestamp":1612396800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"ELIXIR Implementation Study"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,9,9]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>In mass spectrometry-based proteomics, accurate peptide masses improve identifications, alignment and quantitation. Getting the most out of any instrument therefore requires proper calibration. Here, we present a new stand-alone software, mzRecal, for universal automatic recalibration of data from all common mass analyzers using standard open formats and based on physical principles.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>mzRecal is implemented in Go and freely available on https:\/\/github.com\/524D\/mzRecal.<\/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\/btab056","type":"journal-article","created":{"date-parts":[[2021,1,26]],"date-time":"2021-01-26T20:11:55Z","timestamp":1611691915000},"page":"2768-2769","source":"Crossref","is-referenced-by-count":3,"title":["mzRecal: universal MS1 recalibration in mzML using identified peptides in mzIdentML as internal calibrants"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1220-9173","authenticated-orcid":false,"given":"Rob","family":"Marissen","sequence":"first","affiliation":[{"name":"Leiden University Medical Center Center for Proteomics and Metabolomics, , Leiden 2333 ZA, The Netherlands"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5865-8994","authenticated-orcid":false,"given":"Magnus","family":"Palmblad","sequence":"additional","affiliation":[{"name":"Leiden University Medical Center Center for Proteomics and Metabolomics, , Leiden 2333 ZA, The Netherlands"}]}],"member":"286","published-online":{"date-parts":[[2021,2,4]]},"reference":[{"key":"2023051609171306600_btab056-B1","doi-asserted-by":"crossref","first-page":"1367","DOI":"10.1038\/nbt.1511","article-title":"MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification","volume":"26","author":"Cox","year":"2008","journal-title":"Nat. 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Proteome Res"},{"key":"2023051609171306600_btab056-B7","doi-asserted-by":"crossref","first-page":"3076","DOI":"10.1002\/rcm.2707","article-title":"Automatic internal calibration in liquid chromatography\/Fourier transform ion cyclotron resonance mass spectrometry of protein digests","volume":"20","author":"Palmblad","year":"2006","journal-title":"Rapid. Commun. Mass. Spectrom"},{"key":"2023051609171306600_btab056-B8","year":"2020"},{"key":"2023051609171306600_btab056-B9","doi-asserted-by":"crossref","first-page":"214","DOI":"10.1021\/pr300837u","article-title":"Rapid and deep profiling of human induced pluripotent stem cell proteome by one-shot NanoLC\u2013MS\/MS analysis with meter-scale monolithic silica columns","volume":"12","author":"Yamana","year":"2013","journal-title":"J. Proteome Res"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btab056\/36242968\/btab056.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/17\/2768\/50339394\/btab056.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/17\/2768\/50339394\/btab056.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,5,16]],"date-time":"2023-05-16T09:20:35Z","timestamp":1684228835000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/37\/17\/2768\/6128507"}},"subtitle":[],"editor":[{"given":"Pier Luigi","family":"Martelli","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2021,2,4]]},"references-count":9,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2021,9,9]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btab056","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2021,9,1]]},"published":{"date-parts":[[2021,2,4]]}}}