{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,6]],"date-time":"2026-11-06T19:51:20Z","timestamp":1793994680481,"version":"4.8.0"},"reference-count":21,"publisher":"American Chemical Society (ACS)","issue":"6","license":[{"start":{"date-parts":[[2026,5,15]],"date-time":"2026-05-15T00:00:00Z","timestamp":1778803200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100011661","name":"Pacific Northwest National Laboratory","doi-asserted-by":"publisher","award":["Predictive Phenomics Initiative"],"award-info":[{"award-number":["Predictive Phenomics Initiative"]}],"id":[{"id":"10.13039\/100011661","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Proteome Res."],"published-print":{"date-parts":[[2026,6,5]]},"DOI":"10.1021\/acs.jproteome.5c00782","type":"journal-article","created":{"date-parts":[[2026,5,15]],"date-time":"2026-05-15T07:12:08Z","timestamp":1778829128000},"page":"3159-3167","source":"Crossref","is-referenced-by-count":2,"title":["Aggregation Methods for Quantifying PTM and Structural Changes in Bottom-Up Proteomics"],"prefix":"10.1021","volume":"25","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-8933-7413","authenticated-orcid":true,"given":"Erik D.","family":"VonKaenel","sequence":"first","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jordan C.","family":"Rozum","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2540-2017","authenticated-orcid":true,"given":"Tong","family":"Zhang","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1721-9688","authenticated-orcid":true,"given":"Kelly G.","family":"Stratton","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8384-1926","authenticated-orcid":true,"given":"Lisa M.","family":"Bramer","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"H. Steven","family":"Wiley","sequence":"additional","affiliation":[{"name":"Environmental Molecular Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5393-2827","authenticated-orcid":true,"given":"Wei-Jun","family":"Qian","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Amy C.","family":"Sims","sequence":"additional","affiliation":[{"name":"Nuclear, Chemical, and Biological Technologies Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3781-2566","authenticated-orcid":true,"given":"John T.","family":"Melchior","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3983-9009","authenticated-orcid":true,"given":"Song","family":"Feng","sequence":"additional","affiliation":[{"name":"Biological Sciences Division","place":["Richland, United States"]},{"name":"Pacific Northwest National Laboratory","place":["Richland, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"316","published-online":{"date-parts":[[2026,5,15]]},"reference":[{"key":"ref1\/cit1","doi-asserted-by":"publisher","DOI":"10.1074\/mcp.R500012-MCP200"},{"key":"ref2\/cit2","doi-asserted-by":"publisher","DOI":"10.1093\/bib\/bbs004"},{"key":"ref3\/cit3","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.1c00894"},{"key":"ref4\/cit4","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.0c00602"},{"key":"ref5\/cit5","doi-asserted-by":"publisher","DOI":"10.1021\/pr501223t"},{"key":"ref6\/cit6","doi-asserted-by":"publisher","DOI":"10.1016\/j.mcpro.2023.100583"},{"key":"ref7\/cit7","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.1511"},{"key":"ref8\/cit8","doi-asserted-by":"publisher","DOI":"10.3390\/proteomes9010015"},{"key":"ref9\/cit9","doi-asserted-by":"publisher","DOI":"10.1038\/nprot.2017.100"},{"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.5c00400"},{"key":"ref12\/cit12","doi-asserted-by":"publisher","DOI":"10.1016\/j.mcpro.2025.101443"},{"key":"ref13\/cit13","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.3c00887"},{"key":"ref14\/cit14","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.2c00610"},{"key":"ref15\/cit15","doi-asserted-by":"publisher","DOI":"10.1002\/pmic.201200269"},{"key":"ref16\/cit16","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btn217"},{"key":"ref17\/cit17","doi-asserted-by":"publisher","DOI":"10.1038\/nprot.2016.136"},{"key":"ref18\/cit18","doi-asserted-by":"publisher","DOI":"10.1021\/es301139q"},{"key":"ref19\/cit19","unstructured":"Dodder, N.; Mullen, K.; Dodder, M. N. Package \u2018OrgMassSpecR\u2019. 2017."},{"key":"ref20\/cit20","doi-asserted-by":"publisher","DOI":"10.1021\/acs.jproteome.0c00123"},{"key":"ref21\/cit21","doi-asserted-by":"publisher","DOI":"10.1016\/j.mcpro.2024.100881"}],"container-title":["Journal of Proteome Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/pubs.acs.org\/doi\/pdf\/10.1021\/acs.jproteome.5c00782","content-type":"application\/pdf","content-version":"vor","intended-application":"unspecified"},{"URL":"https:\/\/pubs.acs.org\/doi\/pdf\/10.1021\/acs.jproteome.5c00782","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,6,5]],"date-time":"2026-06-05T08:13:38Z","timestamp":1780647218000},"score":1,"resource":{"primary":{"URL":"https:\/\/pubs.acs.org\/doi\/10.1021\/acs.jproteome.5c00782"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,5,15]]},"references-count":21,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2026,6,5]]}},"alternative-id":["10.1021\/acs.jproteome.5c00782"],"URL":"https:\/\/doi.org\/10.1021\/acs.jproteome.5c00782","relation":{},"ISSN":["1535-3893","1535-3907"],"issn-type":[{"value":"1535-3893","type":"print"},{"value":"1535-3907","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,5,15]]}}}