ArticleAnalytical chemistry2016
Automated Glycan Sequencing from Tandem Mass Spectra of N-Linked Glycopeptides.
Article in Analytical chemistry, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
22 citing papers in PubMed, 1 synthesis or guideline pooled it, 40 citations in OpenAlex.
- Recent Advances in Software Tools for More Generic and Precise Intact Glycopeptide Analysis.Molecular & cellular proteomics : MCP · 2021Pooled it
- Article
- Glycan Sequencing, A Brief Primer.Glycoscience & therapy · 2026Article
- Biomarker Discovery via N-Glycoproteomics.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Boltzmann Model Predicts Glycan Structures from Lectin Binding.Analytical chemistry · 2024Article
- A Boltzmann model predicts glycan structures from lectin binding.bioRxiv : the preprint server for biology · 2024Article
- GlycoSLASH: Concurrent Glycopeptide Identification from Multiple Related LC-MS/MS Data Sets by Using Spectral Clustering and Library Searching.Journal of proteome research · 2023Article
- GlycoDeNovo2: An Improved MS/MS-BasedJournal of the American Society for Mass Spectrometry · 2022Article
- GlycoHybridSeq: Automated Identification of N-Linked Glycopeptides Using Electron Transfer/High-Energy Collision Dissociation (EThcD).Journal of proteome research · 2021Article
- SIGLEC-3 (CD33) serves as an immune checkpoint receptor for HBV infection.The Journal of clinical investigation · 2021Article
- Glycan Compositions with GlyConnect Compozitor to Enhance Glycopeptide Identification.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Fast and comprehensive N- and O-glycoproteomics analysis with MSFragger-Glyco.Nature methods · 2020Article
- Advancing Solutions to the Carbohydrate Sequencing Challenge.Journal of the American Chemical Society · 2019Review
- DecoyDeveloper: An On-Demand, De Novo Decoy Glycopeptide Generator.Journal of proteome research · 2019Article
- Multi-Omics Strategies Uncover Host-Pathogen Interactions.ACS infectious diseases · 2019Review
- Advances in mass spectrometry-based glycoproteomics.Electrophoresis · 2018Review
- Microfluidic Capillary Electrophoresis-Mass Spectrometry for Analysis of Monosaccharides, Oligosaccharides, and Glycopeptides.Analytical chemistry · 2017Article
- Recent advances in mass spectrometric analysis of glycoproteins.Electrophoresis · 2017Review
- A Brief Review of Bioinformatics Tools for Glycosylation Analysis by Mass Spectrometry.Mass spectrometry (Tokyo, Japan) · 2017Article
- Glycoprotein Enrichment Analytical Techniques: Advantages and Disadvantages.Methods in enzymology · 2017Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
Abstract
Mass spectrometry has become a routine experimental tool for proteomic biomarker analysis of human blood samples, partly due to the large availability of informatics tools. As one of the most common protein post-translational modifications (PTMs) in mammals, protein glycosylation has been observed to alter in multiple human diseases and thus may potentially be candidate markers of disease progression. While mass spectrometry instrumentation has seen advancements in capabilities, discovering glycosylation-related markers using existing software is currently not straightforward. Complete characterization of protein glycosylation requires the identification of intact glycopeptides in samples, including identification of the modification site as well as the structure of the attached glycans. In this paper, we present GlycoSeq, an open-source software tool that implements a heuristic iterated glycan sequencing algorithm coupled with prior knowledge for automated elucidation of the glycan structure within a glycopeptide from its collision-induced dissociation tandem mass spectrum. GlycoSeq employs rules of glycosidic linkage as defined by glycan synthetic pathways to eliminate improbable glycan structures and build reasonable glycan trees. We tested the tool on two sets of tandem mass spectra of N-linked glycopeptides cell lines acquired from breast cancer patients. After employing enzymatic specificity within the N-linked glycan synthetic pathway, the sequencing results of GlycoSeq were highly consistent with the manually curated glycan structures. Hence, GlycoSeq is ready to be used for the characterization of glycan structures in glycopeptides from MS/MS analysis. GlycoSeq is released as open source software at https://github.com/chpaul/GlycoSeq/ .
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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.