{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,27]],"date-time":"2025-10-27T05:00:10Z","timestamp":1761541210003},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"21","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,11,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Sequencing oligosaccharides by exoglycosidases, either sequentially or in an array format, is a powerful tool to unambiguously determine the structure of complex N- and O- link glycans. Here, we introduce GlycoDigest, a tool that simulates exoglycosidase digestion, based on controlled rules acquired from expert knowledge and experimental evidence available in GlycoBase. The tool allows the targeted design of glycosidase enzyme mixtures by allowing researchers to model the action of exoglycosidases, thereby validating and improving the efficiency and accuracy of glycan analysis.<\/jats:p>\n               <jats:p>Availability and implementation: \u00a0http:\/\/www.glycodigest.org .<\/jats:p>\n               <jats:p>Contact: \u00a0matthew.campbell@mq.edu.au or frederique.lisacek@isb-sib.ch<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu425","type":"journal-article","created":{"date-parts":[[2014,7,12]],"date-time":"2014-07-12T03:16:15Z","timestamp":1405134975000},"page":"3131-3133","source":"Crossref","is-referenced-by-count":30,"title":["GlycoDigest: a tool for the targeted use of exoglycosidase digestions in glycan structure determination"],"prefix":"10.1093","volume":"30","author":[{"given":"Lou","family":"Gotz","sequence":"first","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Jodie L.","family":"Abrahams","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Julien","family":"Mariethoz","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Pauline M.","family":"Rudd","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Niclas G.","family":"Karlsson","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Nicolle H.","family":"Packer","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Matthew P.","family":"Campbell","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]},{"given":"Frederique","family":"Lisacek","sequence":"additional","affiliation":[{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"},{"name":"1 Proteome Informatics Group, Swiss Institute of Bioinformatics, 1211 Geneva, Switzerland, 2 Biomolecular Frontiers Research Centre, Macquarie University, North Ryde, NSW 2109, Australia, 3 National Institute for Bioprocessing Research and Training, GlycoScience Group, Dublin, Ireland, 4 Department of Medical Biochemistry and Cell Biology, University of Gothenburg, 40530 Gothenburg, Sweden and 5 Section of Biology, University of Geneva, 1211 Geneva, Switzerland"}]}],"member":"286","published-online":{"date-parts":[[2014,7,10]]},"reference":[{"key":"2023012711583740900_btu425-B1","doi-asserted-by":"crossref","first-page":"648","DOI":"10.3390\/metabo2040648","article-title":"Structural identification of O-linked oligosaccharides using exoglycosidases and MSn together with UniCarb-DB fragment spectra comparison","volume":"2","author":"Ali","year":"2012","journal-title":"Metabolites"},{"key":"2023012711583740900_btu425-B2","first-page":"1214","article-title":"GlycoBase and autoGU: tools for HPLC-based glycan analysis","volume":"24","author":"Campbell","year":"2008","journal-title":"Bioinformatics 2008"},{"key":"2023012711583740900_btu425-B3","doi-asserted-by":"crossref","first-page":"S9","DOI":"10.1186\/1471-2105-15-S1-S9","article-title":"Toolboxes for a standardised and systematic study of glycans","volume":"15","author":"Campbell","year":"2014","journal-title":"BMC Bioinformatics"},{"key":"2023012711583740900_btu425-B4","doi-asserted-by":"crossref","first-page":"D215","DOI":"10.1093\/nar\/gkt1128","article-title":"UniCarbKB: building a knowledge platform for glycoproteomics","volume":"42","author":"Campbell","year":"2014","journal-title":"Nucleic Acids Res"},{"key":"2023012711583740900_btu425-B5","doi-asserted-by":"crossref","first-page":"1357","DOI":"10.1515\/hsz-2012-0135","article-title":"The GlycanBuilder and GlycoWorkbench glycoinformatics tools: updates and new developments","volume":"393","author":"Damerell","year":"2012","journal-title":"Biol. Chem."},{"key":"2023012711583740900_btu425-B6","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1006\/abio.1996.0351","article-title":"A rapid high-resolution high-performance liquid chromatographic method for separating glycan mixtures and analyzing oligosaccharide profiles","volume":"240","author":"Guile","year":"1996","journal-title":"Anal Biochem"},{"key":"2023012711583740900_btu425-B7","doi-asserted-by":"crossref","first-page":"1343","DOI":"10.1093\/bioinformatics\/btr137","article-title":"UniCarb-DB: a database resource for glycomic discovery","volume":"27","author":"Hayes","year":"2011","journal-title":"Bioinformatics"},{"key":"2023012711583740900_btu425-B8","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/0003-2697(79)90102-7","article-title":"Use of endo- and exoglycosidases for structural studies of glycoconjugates","volume":"100","author":"Kobata","year":"1979","journal-title":"Anal. Biochem."},{"key":"2023012711583740900_btu425-B9","first-page":"53","article-title":"Exoglycosidase sequencing of N-linked glycans by the reagent array analysis method (RAAM)","volume":"76","author":"Prime","year":"1998","journal-title":"Methods Mol. Biol."},{"key":"2023012711583740900_btu425-B10","first-page":"125","article-title":"Detailed structural analysis of N-glycans released from glycoproteins in SDS-PAGE gel bands using HPLC combined with exoglycosidase array digestions","volume":"347","author":"Royle","year":"2006","journal-title":"Methods Mol. Biol."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/21\/3131\/48931097\/bioinformatics_30_21_3131.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/21\/3131\/48931097\/bioinformatics_30_21_3131.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,27]],"date-time":"2023-01-27T12:53:15Z","timestamp":1674823995000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/30\/21\/3131\/2422161"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,7,10]]},"references-count":10,"journal-issue":{"issue":"21","published-print":{"date-parts":[[2014,11,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btu425","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2014,11,1]]},"published":{"date-parts":[[2014,7,10]]}}}