{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,27]],"date-time":"2026-03-27T15:42:25Z","timestamp":1774626145348,"version":"3.50.1"},"reference-count":30,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2024,10,8]],"date-time":"2024-10-08T00:00:00Z","timestamp":1728345600000},"content-version":"vor","delay-in-days":7,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,12,3]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Identification evaluation and result dissemination are essential components in mass spectrometry-based proteomics analysis. The visualization of fragment ions in mass spectrum provides strong evidence for peptide identification and modification localization. Here, we present an easy-to-use tool, named GP-Plotter, for ion annotation of tandem mass spectra and corresponding image output. Identification result files of common searching tools in the community and user-customized files are supported as input of GP-Plotter. Multiple display modes and parameter customization can be achieved in GP-Plotter to present annotated spectra of interest. Different image formats, especially vector graphic formats, are available for image generation which is favorable for data publication. Notably, GP-Plotter is also well-suited for the visualization and evaluation of glycopeptide spectrum assignments with comprehensive annotation of glycan fragment ions. With a user-friendly graphical interface, GP-Plotter is expected to be a universal visualization tool for the community. GP-Plotter has been implemented in the latest version of Glyco-Decipher (v1.0.4) and the standalone GP-Plotter software is also freely available at https:\/\/github.com\/DICP-1809.<\/jats:p>","DOI":"10.1093\/gpbjnl\/qzae069","type":"journal-article","created":{"date-parts":[[2024,10,8]],"date-time":"2024-10-08T16:25:34Z","timestamp":1728404734000},"source":"Crossref","is-referenced-by-count":2,"title":["GP-Plotter: Flexible Spectral Visualization for Proteomics Data with Emphasis on Glycoproteomics Analysis"],"prefix":"10.1093","volume":"22","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2139-3256","authenticated-orcid":false,"given":"Zheng","family":"Fang","sequence":"first","affiliation":[{"name":"State Key Laboratory of Medical Proteomics, National Chromatographic R. & A. Center, CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , Dalian 116023,","place":["China"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0770-7880","authenticated-orcid":false,"given":"Mingming","family":"Dong","sequence":"additional","affiliation":[{"name":"School of Bioengineering, Dalian University of Technology , Dalian 116024,","place":["China"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7508-0872","authenticated-orcid":false,"given":"Hongqiang","family":"Qin","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Medical Proteomics, National Chromatographic R. & A. Center, CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , Dalian 116023,","place":["China"]},{"name":"University of Chinese Academy of Sciences , Beijing 100049,","place":["China"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5872-9326","authenticated-orcid":false,"given":"Mingliang","family":"Ye","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Medical Proteomics, National Chromatographic R. & A. Center, CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences , Dalian 116023,","place":["China"]},{"name":"University of Chinese Academy of Sciences , Beijing 100049,","place":["China"]}]}],"member":"286","published-online":{"date-parts":[[2024,10,8]]},"reference":[{"key":"2024122105052233900_qzae069-B1","doi-asserted-by":"crossref","first-page":"586","DOI":"10.1016\/j.chom.2020.08.004","article-title":"Virus-receptor interactions of glycosylated SARS-CoV-2 spike and human ACE2 receptor","volume":"28","author":"Zhao","year":"2020","journal-title":"Cell Host Microbe"},{"key":"2024122105052233900_qzae069-B2","doi-asserted-by":"crossref","first-page":"867","DOI":"10.1021\/acs.analchem.9b03555","article-title":"Multilayered\u00a0N-glycoproteome profiling reveals highly heterogeneous and dysregulated protein\u00a0N-glycosylation related to Alzheimer\u2019s 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