{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,17]],"date-time":"2026-07-17T12:18:07Z","timestamp":1784290687178,"version":"3.55.0"},"reference-count":77,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2022,9,27]],"date-time":"2022-09-27T00:00:00Z","timestamp":1664236800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2021YFA1302100"],"award-info":[{"award-number":["2021YFA1302100"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["81972239"],"award-info":[{"award-number":["81972239"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["91953123"],"award-info":[{"award-number":["91953123"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["81930065"],"award-info":[{"award-number":["81930065"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["82173128"],"award-info":[{"award-number":["82173128"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Science and Technology Program of Guangzhou","award":["202206080011"],"award-info":[{"award-number":["202206080011"]}]},{"name":"Program for Guangdong Introducing Innovative and Entrepreneurial Teams","award":["2017ZT07S096"],"award-info":[{"award-number":["2017ZT07S096"]}]},{"DOI":"10.13039\/501100013111","name":"Tip-top Scientific and Technical Innovative Youth Talents of Guangdong Special Support Program","doi-asserted-by":"publisher","award":["2019TQ05Y351"],"award-info":[{"award-number":["2019TQ05Y351"]}],"id":[{"id":"10.13039\/501100013111","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012245","name":"Science and Technology Program of Guangdong","doi-asserted-by":"publisher","award":["2019B020227002"],"award-info":[{"award-number":["2019B020227002"]}],"id":[{"id":"10.13039\/501100012245","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003453","name":"Natural Science Foundation of Guangdong Province","doi-asserted-by":"publisher","award":["2019A1515010634"],"award-info":[{"award-number":["2019A1515010634"]}],"id":[{"id":"10.13039\/501100003453","id-type":"DOI","asserted-by":"publisher"}]},{"name":"CAMS Innovation Fund for Medical Sciences","award":["2019-I2M-5-036"],"award-info":[{"award-number":["2019-I2M-5-036"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,1,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Post-translational modifications (PTMs) are critical molecular mechanisms that regulate protein functions temporally and spatially in various organisms. Since most PTMs are dynamically regulated, quantifying PTM events under different states is crucial for understanding biological processes and diseases. With the rapid development of high-throughput proteomics technologies, massive quantitative PTM proteome datasets have been generated. Thus, a comprehensive one-stop data resource for surfing big data will benefit the community. Here, we updated our previous phosphorylation dynamics database qPhos to the qPTM (http:\/\/qptm.omicsbio.info). In qPTM, 11 482 553 quantification events among six types of PTMs, including phosphorylation, acetylation, glycosylation, methylation, SUMOylation and ubiquitylation in four different organisms were collected and integrated, and the matched proteome datasets were included if available. The raw mass spectrometry based false discovery rate control and the recurrences of identifications among datasets were integrated into a scoring system to assess the reliability of the PTM sites. Browse and search functions were improved to facilitate users in swiftly and accurately acquiring specific information. The results page was revised with more abundant annotations, and time-course dynamics data were visualized in trend lines. We expected the qPTM database to be a much more powerful and comprehensive data repository for the PTM research community.<\/jats:p>","DOI":"10.1093\/nar\/gkac820","type":"journal-article","created":{"date-parts":[[2022,9,27]],"date-time":"2022-09-27T16:22:20Z","timestamp":1664295740000},"page":"D479-D487","source":"Crossref","is-referenced-by-count":47,"title":["qPTM: an updated database for PTM dynamics in human, mouse, rat and yeast"],"prefix":"10.1093","volume":"51","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3343-2902","authenticated-orcid":false,"given":"Kai","family":"Yu","sequence":"first","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ye","family":"Wang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3246-2800","authenticated-orcid":false,"given":"Yongqiang","family":"Zheng","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zekun","family":"Liu","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qingfeng","family":"Zhang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Siyu","family":"Wang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qi","family":"Zhao","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaolong","family":"Zhang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xiaoxing","family":"Li","sequence":"additional","affiliation":[{"name":"Precision Medicine Institute, First Affiliated Hospital, Sun Yat-sen University , Guangzhou \u00a0510080,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9771-8534","authenticated-orcid":false,"given":"Rui-Hua","family":"Xu","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"},{"name":"Research Unit of Precision Diagnosis and Treatment for Gastrointestinal Cancer, Chinese Academy of Medical Sciences , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9698-0610","authenticated-orcid":false,"given":"Ze-Xian","family":"Liu","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center , Guangzhou \u00a0510060,\u00a0 China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2022,9,27]]},"reference":[{"key":"2023010804242569600_B1","doi-asserted-by":"crossref","first-page":"7342","DOI":"10.1002\/anie.200501023","article-title":"Protein posttranslational modifications: the chemistry of proteome diversifications","volume":"44","author":"Walsh","year":"2005","journal-title":"Angew. Chem. Int. Ed Engl."},{"key":"2023010804242569600_B2","doi-asserted-by":"crossref","first-page":"244","DOI":"10.1038\/nchembio.2575","article-title":"Features and regulation of non-enzymatic post-translational modifications","volume":"14","author":"Harmel","year":"2018","journal-title":"Nat. Chem. Biol."},{"key":"2023010804242569600_B3","doi-asserted-by":"crossref","first-page":"E127","DOI":"10.1038\/ncb0502-e127","article-title":"The origins of protein phosphorylation","volume":"4","author":"Cohen","year":"2002","journal-title":"Nat. Cell Biol."},{"key":"2023010804242569600_B4","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1038\/s41580-019-0147-x","article-title":"The importance of non-histone protein methylation in cancer therapy","volume":"20","author":"Rodriguez-Paredes","year":"2019","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2023010804242569600_B5","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1038\/s41580-018-0081-3","article-title":"Functions and mechanisms of non-histone protein acetylation","volume":"20","author":"Narita","year":"2019","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2023010804242569600_B6","doi-asserted-by":"crossref","first-page":"599","DOI":"10.1038\/nrm1700","article-title":"Ubiquitin and ubiquitin-like proteins as multifunctional signals","volume":"6","author":"Welchman","year":"2005","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2023010804242569600_B7","doi-asserted-by":"crossref","first-page":"452","DOI":"10.1038\/nrm.2017.22","article-title":"Protein O-GlcNAcylation: emerging mechanisms and functions","volume":"18","author":"Yang","year":"2017","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2023010804242569600_B8","doi-asserted-by":"crossref","first-page":"581","DOI":"10.1038\/nrm.2016.81","article-title":"A comprehensive compilation of SUMO proteomics","volume":"17","author":"Hendriks","year":"2016","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2023010804242569600_B9","doi-asserted-by":"crossref","first-page":"458","DOI":"10.1016\/j.cell.2014.09.037","article-title":"SnapShot: histone modifications","volume":"159","author":"Huang","year":"2014","journal-title":"Cell"},{"key":"2023010804242569600_B10","first-page":"227","article-title":"Zur frage ob case\u00edn ein einheitlicher stoff sei","volume":"7","author":"H","year":"1883","journal-title":"Hoppe-Seyler's Zeitsch. Physiol. 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Proteomics"},{"key":"2023010804242569600_B19","doi-asserted-by":"crossref","first-page":"226","DOI":"10.1016\/j.cell.2020.06.012","article-title":"Proteogenomics of Non-smoking lung cancer in east asia delineates molecular signatures of pathogenesis and progression","volume":"182","author":"Chen","year":"2020","journal-title":"Cell"},{"key":"2023010804242569600_B20","doi-asserted-by":"crossref","first-page":"200","DOI":"10.1016\/j.cell.2020.06.013","article-title":"Proteogenomic characterization reveals therapeutic vulnerabilities in lung adenocarcinoma","volume":"182","author":"Gillette","year":"2020","journal-title":"Cell"},{"key":"2023010804242569600_B21","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1016\/j.cell.2020.05.043","article-title":"Integrative proteomic characterization of human lung adenocarcinoma","volume":"182","author":"Xu","year":"2020","journal-title":"Cell"},{"key":"2023010804242569600_B22","doi-asserted-by":"crossref","first-page":"561","DOI":"10.1016\/j.cell.2019.08.052","article-title":"Integrated proteogenomic characterization of HBV-Related hepatocellular carcinoma","volume":"179","author":"Gao","year":"2019","journal-title":"Cell"},{"key":"2023010804242569600_B23","doi-asserted-by":"crossref","first-page":"257","DOI":"10.1038\/s41586-019-0987-8","article-title":"Proteomics identifies new therapeutic targets of early-stage hepatocellular carcinoma","volume":"567","author":"Jiang","year":"2019","journal-title":"Nature"},{"key":"2023010804242569600_B24","doi-asserted-by":"crossref","first-page":"3499","DOI":"10.1021\/acs.jproteome.0c00311","article-title":"Integrated proteomic and N-Glycoproteomic analyses of human breast cancer","volume":"19","author":"Wang","year":"2020","journal-title":"J. Proteome Res."},{"key":"2023010804242569600_B25","doi-asserted-by":"crossref","first-page":"345","DOI":"10.1016\/j.cels.2019.03.011","article-title":"N-Glycoproteomics of patient-derived xenografts: a strategy to discover tumor-associated proteins in high-grade serous ovarian cancer","volume":"8","author":"Sinha","year":"2019","journal-title":"Cell Syst."},{"key":"2023010804242569600_B26","doi-asserted-by":"crossref","first-page":"103834","DOI":"10.1016\/j.jprot.2020.103834","article-title":"Proteomic analyses reveal divergent ubiquitylation patterns in hepatocellula carcinoma cell lines with different metastasis potential","volume":"225","author":"Sun","year":"2020","journal-title":"J. Proteomics"},{"key":"2023010804242569600_B27","doi-asserted-by":"crossref","first-page":"1436","DOI":"10.1016\/j.cell.2020.10.036","article-title":"Proteogenomic landscape of breast cancer tumorigenesis and targeted therapy","volume":"183","author":"Krug","year":"2020","journal-title":"Cell"},{"key":"2023010804242569600_B28","doi-asserted-by":"crossref","first-page":"eaaq1087","DOI":"10.1126\/scisignal.aaq1087","article-title":"Integration of protein phosphorylation, acetylation, and methylation data sets to outline lung cancer signaling networks","volume":"11","author":"Grimes","year":"2018","journal-title":"Sci. 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Proteome Res."},{"key":"2023010804242569600_B43","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1186\/s12014-019-9254-0","article-title":"N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping","volume":"16","author":"Sun","year":"2019","journal-title":"Clin. Proteomics"},{"key":"2023010804242569600_B44","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1016\/j.jgg.2017.03.007","article-title":"PLMD: an updated data resource of protein lysine modifications","volume":"44","author":"Xu","year":"2017","journal-title":"J. Genet. 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