{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:14Z","timestamp":1772138054988,"version":"3.50.1"},"reference-count":20,"publisher":"Oxford University Press (OUP)","issue":"Supplement_2","license":[{"start":{"date-parts":[[2022,9,1]],"date-time":"2022-09-01T00:00:00Z","timestamp":1661990400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100001711","name":"Swiss National Science Foundation","doi-asserted-by":"publisher","award":["ECCB2022"],"award-info":[{"award-number":["ECCB2022"]}],"id":[{"id":"10.13039\/501100001711","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001711","name":"SNSF","doi-asserted-by":"publisher","award":["443 #31003A\/179249"],"award-info":[{"award-number":["443 #31003A\/179249"]}],"id":[{"id":"10.13039\/501100001711","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Swiss Federal Government"},{"DOI":"10.13039\/501100007352","name":"State Secretariat for Education, Research and Innovation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100007352","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,9,16]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>We have previously designed and implemented a tree-based ontology to represent glycan structures with the aim of searching these structures with a glyco-driven syntax. This resulted in creating the GlySTreeM knowledge-base as a linchpin of the structural matching procedure and we now introduce a query language, called GlycoQL, for the actual implementation of a glycan structure search.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>The methodology is described and illustrated with a use-case focused on Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) spike protein glycosylation. We show how to enhance site annotation with federated queries involving UniProt and GlyConnect, our glycoprotein database.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>https:\/\/glyconnect.expasy.org\/glycoql\/.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac500","type":"journal-article","created":{"date-parts":[[2022,8,24]],"date-time":"2022-08-24T09:40:33Z","timestamp":1661334033000},"page":"ii162-ii167","source":"Crossref","is-referenced-by-count":3,"title":["This is GlycoQL"],"prefix":"10.1093","volume":"38","author":[{"given":"Catherine","family":"Hayes","sequence":"first","affiliation":[{"name":"Department of Computer Science, University of Geneva , Geneva 1227, Switzerland"},{"name":"Proteome Informatics Group, SIB Swiss Institute of Bioinformatics , Geneva 1211, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vincenzo","family":"Daponte","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Geneva , Geneva 1227, Switzerland"},{"name":"Proteome Informatics Group, SIB Swiss Institute of Bioinformatics , Geneva 1211, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Julien","family":"Mariethoz","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Geneva , Geneva 1227, Switzerland"},{"name":"Proteome Informatics Group, SIB Swiss Institute of Bioinformatics , Geneva 1211, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Frederique","family":"Lisacek","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of Geneva , Geneva 1227, Switzerland"},{"name":"Proteome Informatics Group, SIB Swiss Institute of Bioinformatics , Geneva 1211, Switzerland"},{"name":"Section of Biology, University of Geneva , Geneva 1211, Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2022,9,18]]},"reference":[{"key":"2023041408003842800_","doi-asserted-by":"crossref","first-page":"e0144578","DOI":"10.1371\/journal.pone.0144578","article-title":"Property graph vs RDF triple store: a comparison on glycan substructure search","volume":"10","author":"Alocci","year":"2015","journal-title":"PLoS One"},{"key":"2023041408003842800_","doi-asserted-by":"crossref","first-page":"664","DOI":"10.1021\/acs.jproteome.8b00766","article-title":"GlyConnect: glycoproteomics goes visual, interactive, and analytical","volume":"18","author":"Alocci","year":"2019","journal-title":"J. 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