{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,19]],"date-time":"2026-02-19T20:09:07Z","timestamp":1771531747626,"version":"3.50.1"},"reference-count":11,"publisher":"Oxford University Press (OUP)","issue":"24","license":[{"start":{"date-parts":[[2021,6,15]],"date-time":"2021-06-15T00:00:00Z","timestamp":1623715200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Foundation of Knut and Alice Wallenberg","award":["2016.0023"],"award-info":[{"award-number":["2016.0023"]}]},{"name":"Foundation of Knut and Alice Wallenberg","award":["2019.0353"],"award-info":[{"award-number":["2019.0353"]}]},{"DOI":"10.13039\/501100004359","name":"Vetenskapsr\u00e5det","doi-asserted-by":"publisher","award":["2020-02419"],"award-info":[{"award-number":["2020-02419"]}],"id":[{"id":"10.13039\/501100004359","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001711","name":"Swiss National Science Foundation","doi-asserted-by":"publisher","award":["P2ZHP3_191289"],"award-info":[{"award-number":["P2ZHP3_191289"]}],"id":[{"id":"10.13039\/501100001711","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,12,11]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Protein\u2013protein interactions (PPIs) are central in many biological processes but difficult to characterize, especially in complex, unfractionated samples. Chemical cross-linking combined with mass spectrometry (MS) and computational modeling is gaining recognition as a viable tool in protein interaction studies. Here, we introduce Cheetah-MS, a web server for predicting the PPIs in a complex mixture of samples. It combines the capability and sensitivity of MS to analyze complex samples with the power and resolution of protein\u2013protein docking. It produces the quaternary structure of the PPI of interest by analyzing tandem MS\/MS data (also called MS2). Combining MS analysis and modeling increases the sensitivity and, importantly, facilitates the interpretation of the results.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Cheetah-MS is freely available as a web server at https:\/\/www.txms.org.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btab449","type":"journal-article","created":{"date-parts":[[2021,6,14]],"date-time":"2021-06-14T11:09:03Z","timestamp":1623668943000},"page":"4871-4872","source":"Crossref","is-referenced-by-count":5,"title":["Cheetah-MS: a web server to model protein complexes using tandem cross-linking mass spectrometry data"],"prefix":"10.1093","volume":"37","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-8556-0650","authenticated-orcid":false,"given":"Hamed","family":"Khakzad","sequence":"first","affiliation":[{"name":"Equipe Signalisation Calcique et Infections Microbiennes, \u00c9cole Normale Sup\u00e9rieure Paris-Saclay , Gif-sur-Yvette 91190, France"},{"name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale U1282 , Gif-sur-Yvette 91190, France"}]},{"given":"Lotta","family":"Happonen","sequence":"additional","affiliation":[{"name":"Division of Infection Medicine, Department of Clinical Sciences, Lund University , Lund SE-22184, Sweden"}]},{"given":"Johan","family":"Malmstr\u00f6m","sequence":"additional","affiliation":[{"name":"Division of Infection Medicine, Department of Clinical Sciences, Lund University , Lund SE-22184, Sweden"}]},{"given":"Lars","family":"Malmstr\u00f6m","sequence":"additional","affiliation":[{"name":"Division of Infection Medicine, Department of Clinical Sciences, Lund University , Lund SE-22184, Sweden"}]}],"member":"286","published-online":{"date-parts":[[2021,6,15]]},"reference":[{"key":"2023051607131094900_btab449-B1","article-title":"Streptococcus pyogenes forms serotype and local environment-dependent inter-species protein complexes","author":"Chowdhury","year":"2021","journal-title":"bioRxiv"},{"key":"2023051607131094900_btab449-B2","doi-asserted-by":"crossref","first-page":"1869","DOI":"10.1039\/D0SC05971D","article-title":"The structure of human dermatan sulfate epimerase 1 emphasizes the importance of C5-epimerization of glucuronic acid in higher organisms","volume":"12","author":"Hasan","year":"2021","journal-title":"Chem. 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