{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,22]],"date-time":"2026-10-22T06:02:23Z","timestamp":1792648943852,"version":"4.5.0"},"reference-count":44,"publisher":"American Chemical Society (ACS)","issue":"7","license":[{"start":{"date-parts":[[2024,5,24]],"date-time":"2024-05-24T00:00:00Z","timestamp":1716508800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2024,5,24]],"date-time":"2024-05-24T00:00:00Z","timestamp":1716508800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2024,5,24]],"date-time":"2024-05-24T00:00:00Z","timestamp":1716508800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-045"}],"funder":[{"DOI":"10.13039\/100000152","name":"Division of Molecular and Cellular Biosciences","doi-asserted-by":"publisher","award":["2045844"],"award-info":[{"award-number":["2045844"]}],"id":[{"id":"10.13039\/100000152","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100009980","name":"Old Dominion University","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100009980","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100001309","name":"Research Corporation for Science Advancement","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100001309","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100001082","name":"Camille and Henry Dreyfus Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100001082","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["1T34GM118259-01A1"],"award-info":[{"award-number":["1T34GM118259-01A1"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["DP2-GM140926"],"award-info":[{"award-number":["DP2-GM140926"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["T32-GM135131"],"award-info":[{"award-number":["T32-GM135131"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Proteome Res."],"published-print":{"date-parts":[[2024,7,5]]},"DOI":"10.1021\/acs.jproteome.3c00887","type":"journal-article","created":{"date-parts":[[2024,5,24]],"date-time":"2024-05-24T16:04:50Z","timestamp":1716566690000},"page":"2332-2342","source":"Crossref","is-referenced-by-count":28,"title":["FLiPPR: A Processor for Limited Proteolysis (LiP) Mass Spectrometry Data Sets Built on FragPipe"],"prefix":"10.1021","volume":"23","author":[{"given":"Edgar","family":"Manriquez-Sandoval","sequence":"first","affiliation":[{"name":"Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, United States"},{"name":"T. C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joy","family":"Brewer","sequence":"additional","affiliation":[{"name":"Department of Chemistry and Biochemistry, Old Dominion University, Norfolk, Virginia 23529, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gabriela","family":"Lule","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samanta","family":"Lopez","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2494-2193","authenticated-orcid":true,"given":"Stephen D.","family":"Fried","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, United States"},{"name":"T. C. Jenkins Department of Biophysics, Johns Hopkins University, Baltimore, Maryland 21218, United States"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"316","published-online":{"date-parts":[[2024,5,24]]},"reference":[{"key":"ref1\/cit1","doi-asserted-by":"publisher","DOI":"10.1002\/pmic.201100520"},{"key":"ref2\/cit2","doi-asserted-by":"publisher","DOI":"10.1385\/1-59259-045-4:95"},{"key":"ref3\/cit3","doi-asserted-by":"publisher","DOI":"10.1038\/s41594-022-00735-5"},{"key":"ref4\/cit4","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1819851116"},{"key":"ref5\/cit5","doi-asserted-by":"publisher","DOI":"10.1074\/mcp.M113.034702"},{"key":"ref6\/cit6","doi-asserted-by":"publisher","DOI":"10.1021\/ac2007366"},{"key":"ref7\/cit7","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.REV119.006218"},{"key":"ref8\/cit8","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.6b00755"},{"key":"ref9\/cit9","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.2999"},{"key":"ref10\/cit10","doi-asserted-by":"publisher","DOI":"10.1038\/s41596-022-00771-x"},{"key":"ref11\/cit11","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.8b00341"},{"key":"ref12\/cit12","doi-asserted-by":"publisher","DOI":"10.1038\/s41594-018-0147-0"},{"key":"ref13\/cit13","doi-asserted-by":"publisher","DOI":"10.1016\/j.cbpa.2018.08.006"},{"key":"ref14\/cit14","doi-asserted-by":"publisher","DOI":"10.1002\/anie.201709559"},{"key":"ref15\/cit15","doi-asserted-by":"publisher","DOI":"10.1016\/j.copbio.2019.12.009"},{"key":"ref16\/cit16","doi-asserted-by":"publisher","DOI":"10.1021\/acs.analchem.3c01369"},{"key":"ref17\/cit17","doi-asserted-by":"publisher","DOI":"10.1042\/EBC20220168"},{"key":"ref18\/cit18","doi-asserted-by":"publisher","DOI":"10.1021\/jacs.1c03270"},{"key":"ref19\/cit19","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2017.12.006"},{"key":"ref20\/cit20","doi-asserted-by":"publisher","DOI":"10.1016\/j.molcel.2023.08.015"},{"key":"ref21\/cit21","doi-asserted-by":"publisher","DOI":"10.1038\/s43587-022-00196-x"},{"key":"ref22\/cit22","doi-asserted-by":"publisher","DOI":"10.1126\/science.aai7825"},{"key":"ref23\/cit23","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.2210536119"},{"key":"ref24\/cit24","doi-asserted-by":"publisher","DOI":"10.1021\/acs.analchem.8b04122"},{"key":"ref25\/cit25","doi-asserted-by":"publisher","DOI":"10.1021\/jacs.1c11900"},{"key":"ref26\/cit26","doi-asserted-by":"publisher","DOI":"10.1002\/jms.4669"},{"key":"ref27\/cit27","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-018-03309-6"},{"key":"ref28\/cit28","doi-asserted-by":"publisher","DOI":"10.1074\/mcp.TIR120.002048"},{"key":"ref29\/cit29","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.4256"},{"key":"ref30\/cit30","doi-asserted-by":"publisher","DOI":"10.1016\/j.mcpro.2021.100077"},{"key":"ref31\/cit31","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.1c00143"},{"key":"ref32\/cit32","doi-asserted-by":"publisher","DOI":"10.1002\/pmic.202200092"},{"key":"ref33\/cit33","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.3c00205"},{"key":"ref34\/cit34","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp163"},{"key":"ref35\/cit35","doi-asserted-by":"publisher","DOI":"10.1016\/j.bpj.2021.08.039"},{"key":"ref36\/cit36","doi-asserted-by":"publisher","DOI":"10.1002\/pro.4465"},{"key":"ref37\/cit37","doi-asserted-by":"publisher","DOI":"10.1111\/j.2517-6161.1995.tb02031.x"},{"key":"ref38\/cit38","first-page":"257","volume":"178","author":"Frankland G. C.","year":"1887","journal-title":"Philosophical Transactions of the Royal Society B"},{"key":"ref39\/cit39","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw1003"},{"key":"ref40\/cit40","doi-asserted-by":"publisher","DOI":"10.1093\/genetics\/iyac191"},{"key":"ref41\/cit41","doi-asserted-by":"publisher","DOI":"10.1002\/pro.4465"},{"key":"ref42\/cit42","doi-asserted-by":"publisher","DOI":"10.1021\/acs.analchem.3c02388"},{"key":"ref43\/cit43","doi-asserted-by":"publisher","DOI":"10.1021\/acs.biochem.9b00827"},{"key":"ref44\/cit44","doi-asserted-by":"publisher","DOI":"10.1021\/acschembio.2c00393"}],"container-title":["Journal of Proteome Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/pubs.acs.org\/doi\/pdf\/10.1021\/acs.jproteome.3c00887","content-type":"application\/pdf","content-version":"vor","intended-application":"unspecified"},{"URL":"https:\/\/pubs.acs.org\/doi\/pdf\/10.1021\/acs.jproteome.3c00887","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,7,5]],"date-time":"2024-07-05T08:18:04Z","timestamp":1720167484000},"score":1,"resource":{"primary":{"URL":"https:\/\/pubs.acs.org\/doi\/10.1021\/acs.jproteome.3c00887"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,5,24]]},"references-count":44,"journal-issue":{"issue":"7","published-print":{"date-parts":[[2024,7,5]]}},"alternative-id":["10.1021\/acs.jproteome.3c00887"],"URL":"https:\/\/doi.org\/10.1021\/acs.jproteome.3c00887","relation":{},"ISSN":["1535-3893","1535-3907"],"issn-type":[{"value":"1535-3893","type":"print"},{"value":"1535-3907","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,5,24]]}}}