ArticleBioinformatics (Oxford, England)2019
GlycanFormatConverter: a conversion tool for translating the complexities of glycans.
Article in Bioinformatics (Oxford, England), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- GlycoDiveR: A Modular R Framework to Analyze and Visualize Highly Dimensional Glycoproteomics Data.ACS measurement science au · 2026Article
- Generating 3D models of complex carbohydrates with GLYCAM-Web.Nature methods · 2026Article
- GlycoDiveR: a modular R framework to analyze and visualize highly dimensional glycoproteomics data.bioRxiv : the preprint server for biology · 2026Article
- Bridging worlds: connecting glycan representations with glycoinformatics via Universal Input and a canonicalized nomenclature.Bioinformatics advances · 2025Article
- A periodic table of monosaccharides.Glycobiology · 2024Article
- ProCogGraph: a graph-based mapping of cognate ligand domain interactions.Bioinformatics advances · 2024Article
- Liquid Glycan Array.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Article
- Decoding glycomics with a suite of methods for differential expression analysis.Cell reports methods · 2023Article
- Artificial intelligence in the analysis of glycosylation data.Biotechnology advances · 2022Review
- Glycoinformatics in the Artificial Intelligence Era.Chemical reviews · 2022Review
- CarboGrove: a resource of glycan-binding specificities through analyzed glycan-array datasets from all platforms.Glycobiology · 2022Article
- Informatics Ecosystems to Advance the Biology of Glycans.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Dealing with the Ambiguity of Glycan Substructure Search.Molecules (Basel, Switzerland) · 2021Article
- SugarDrawer: A Web-Based Database Search Tool with Editing Glycan Structures.Molecules (Basel, Switzerland) · 2021Article
- Proposal of the Annotation of Phosphorylated Amino Acids and Peptides Using Biological and Chemical Codes.Molecules (Basel, Switzerland) · 2021Article
- The international glycan repository GlyTouCan version 3.0.Nucleic acids research · 2021Article
- Molecular representations in AI-driven drug discovery: a review and practical guide.Journal of cheminformatics · 2020Review
- Leveraging glycomics data in glycoprotein 3D structure validation with Privateer.Beilstein journal of organic chemistry · 2020Article
- A Bioinformatics View of Glycan⁻Virus Interactions.Viruses · 2019Review
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
motivationGlycans are biomolecules that take an important role in the biological processes of living organisms. They form diverse, complicated structures such as branched and cyclic forms. Web3 Unique Representation of Carbohydrate Structures (WURCS) was proposed as a new linear notation for uniquely representing glycans during the GlyTouCan project. WURCS defines rules for complex glycan structures that other text formats did not support, and so it is possible to represent a wide variety glycans. However, WURCS uses a complicated nomenclature, so it is not human-readable. Therefore, we aimed to support the interpretation of WURCS by converting WURCS to the most basic and widely used format IUPAC.
resultsIn this study, we developed GlycanFormatConverter and succeeded in converting WURCS to the three kinds of IUPAC formats (IUPAC-Extended, IUPAC-Condensed and IUPAC-Short). Furthermore, we have implemented functionality to import IUPAC-Extended, KEGG Chemical Function (KCF) and LinearCode formats and to export WURCS. We have thoroughly tested our GlycanFormatConverter and were able to show that it was possible to convert all the glycans registered in the GlyTouCan repository, with exceptions owing only to the limitations of the original format. The source code for this conversion tool has been released as an open source tool. AVAILABILITY AND IMPLEMENTATION: https://github.com/glycoinfo/GlycanFormatConverter.git. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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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.