ArticleJournal of proteome research2020
Relative Retention Time Estimation Improves N-Glycopeptide Identifications by LC-MS/MS.
Article in Journal of proteome research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Glycopeptide Mass Spectrometry Data Analysis Using Protein Prospector.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Article
- Rapid quantitation of erythropoietin and identification of its glycans using membranes for capture and digestion.Talanta · 2026Article
- Expanding Glycopeptide Identification with Match-Between-Glycans in FragPipe.bioRxiv : the preprint server for biology · 2026Article
- Discovery of a single-subunit oligosaccharyltransferase that enables glycosylation of full-length IgG antibodies in bacteria.Nature communications · 2025Article
- Glycosylation of Structured Protein Domains in Cell-Free Reaction Environments.ACS synthetic biology · 2025Article
- Mass Spectrometry-Based Glycomics and Proteomics Profiling of On-Slide Digested Tissue from Complex Biological Samples.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Expanding N-glycopeptide identifications by modeling fragmentation, elution, and glycome connectivity.Nature communications · 2024Article
- Structural Characterization of a Pathogenic Antibody Underlying Vaccine-Induced Immune Thrombotic Thrombocytopenia (VITT).Analytical chemistry · 2024Article
- RAMZIS: a bioinformatic toolkit for rigorous assessment of the alterations to glycoprotein composition that occur during biological processes.Bioinformatics advances · 2024Article
- Measuring change in glycoprotein structure.Current opinion in structural biology · 2022Review
- Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3.Nature methods · 2021Article
- The opportunity cost of automated glycopeptide analysis: case study profiling the SARS-CoV-2 S glycoprotein.Analytical and bioanalytical chemistry · 2021Article
- Representing and Comparing Site-Specific Glycan Abundance Distributions of Glycoproteins.Journal of proteome research · 2021Article
- The Need for Community Standards to Enable Accurate Comparison of Glycoproteomics Algorithm Performance.Molecules (Basel, Switzerland) · 2021Article
- Towards structure-focused glycoproteomics.Biochemical Society transactions · 2021Review
- Calculating Glycoprotein Similarities From Mass Spectrometric Data.Molecular & cellular proteomics : MCP · 2021Review
- Peak Filtering, Peak Annotation, and Wildcard Search for Glycoproteomics.Molecular & cellular proteomics : MCP · 2021Article
- Integrated Glycoproteomics Identifies a Role of N-Glycosylation and Galectin-1 on Myogenesis and Muscle Development.Molecular & cellular proteomics : MCP · 2021Article
- A Pragmatic Guide to Enrichment Strategies for Mass Spectrometry-Based Glycoproteomics.Molecular & cellular proteomics : MCP · 2021Review
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Glycopeptides identified by tandem mass spectrometry rely on the identification of the peptide backbone sequence and the attached glycan(s) by the incomplete fragmentation of both moieties. This may lead to ambiguous identifications where multiple structures could explain the same spectrum equally well due to missing information in the mass spectrum or incorrect precursor mass determination. To date, approaches to solving these problems have been limited, and few inroads have been made to address these issues. We present a technique to address some of these challenges and demonstrate it on previously published data sets. We use a linear modeling approach to learn the influence of the glycan composition on the retention time of a glycopeptide and use these models to validate glycopeptides within the same experiment, detecting over 400 incorrect cases during the MS/MS search and correcting 75 cases that could not be identified based on mass alone. We make this technique available as a command line executable program, written in Python and C, freely available at https://github.com/mobiusklein/glycresoft in source form, with precompiled binaries for Windows.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.