{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T06:57:40Z","timestamp":1790751460162,"version":"4.1.0"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T00:00:00Z","timestamp":1787529600000},"content-version":"vor","delay-in-days":235,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Human Glycome Atlas Project"},{"name":"JSPS KAKENHI","award":["JP20H04282"],"award-info":[{"award-number":["JP20H04282"]}]},{"name":"JSPS KAKENHI","award":["JP26K21378"],"award-info":[{"award-number":["JP26K21378"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Glycoproteomics data are rapidly accumulating owing to advances in mass spectrometry and specialized search engines that identify N-linked glycopeptide spectrum matches together with glycan structures. However, the structural heterogeneity of glycosylation remains difficult to interpret, and no unified trait-based framework analyzes these data at both glycosylation-site and protein levels.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>We developed GlycoTraitR, an R package for trait-based analysis of structural heterogeneity in N-linked glycoproteomics data. It imports search-engine outputs, extracts biologically interpretable glycan structural traits, quantifies microheterogeneity and macroheterogeneity, and compares heterogeneity across experimental conditions.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>The package and source code are freely available at https:\/\/github.com\/matsui-lab\/glycoTraitR. Documentation and a quick-start guide are available at https:\/\/matsui-lab.github.io\/glycoTraitR\/.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioadv\/vbag244","type":"journal-article","created":{"date-parts":[[2026,8,19]],"date-time":"2026-08-19T11:52:07Z","timestamp":1787140327000},"source":"Crossref","is-referenced-by-count":0,"title":["GlycoTraitR: an R package for characterizing structural heterogeneity in N-linked glycoproteomics data"],"prefix":"10.1093","volume":"6","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4892-323X","authenticated-orcid":false,"given":"Bingyuan","family":"Zhang","sequence":"first","affiliation":[{"name":"Institute for Glyco-core Research (iGCORE), Nagoya University , Furo-cho, Chikusa-ku , Nagoya, Aichi 464-8601,","place":["Japan"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0006-8878-9473","authenticated-orcid":false,"given":"Koichi","family":"Himori","sequence":"additional","affiliation":[{"name":"Institute for Glyco-core Research (iGCORE), Nagoya University , Furo-cho, Chikusa-ku , Nagoya, Aichi 464-8601,","place":["Japan"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3977-4313","authenticated-orcid":false,"given":"Yusuke","family":"Matsui","sequence":"additional","affiliation":[{"name":"Institute for Glyco-core Research (iGCORE), Nagoya University , Furo-cho, Chikusa-ku , Nagoya, Aichi 464-8601,","place":["Japan"]},{"name":"Biomedical and Health Informatics Unit, Department of Integrated Health Science, Nagoya University Graduate School of Medicine , Nagoya, Aichi 461-8671,","place":["Japan"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,8,24]]},"reference":[{"key":"2026093002114755200_vbag244-B1","doi-asserted-by":"crossref","first-page":"4988","DOI":"10.1038\/s41467-021-25183-5","article-title":"Correcting for sparsity and interdependence in glycomics by accounting for glycan biosynthesis","volume":"12","author":"Bao","year":"2021","journal-title":"Nat Commun"},{"key":"2026093002114755200_vbag244-B2","doi-asserted-by":"crossref","first-page":"5484","DOI":"10.1021\/acs.jproteome.5c00320","article-title":"GlyTrait: a versatile bioinformatics tool for glycomics analysis","volume":"24","author":"Fu","year":"2025","journal-title":"J Proteome Res"},{"key":"2026093002114755200_vbag244-B3","doi-asserted-by":"publisher","first-page":"1457","volume":"18","DOI":"10.1038\/s41592-021-01310-4"},{"key":"2026093002114755200_vbag244-B4","doi-asserted-by":"crossref","first-page":"1111","DOI":"10.1038\/s41594-025-01485-w","article-title":"Uncovering protein glycosylation dynamics and heterogeneity using deep quantitative glycoprofiling (DQGlyco)","volume":"32","author":"Potel","year":"2025","journal-title":"Nat Struct Mol Biol"},{"key":"2026093002114755200_vbag244-B5","doi-asserted-by":"publisher","first-page":"1240","volume":"31","DOI":"10.1093\/glycob\/cwab067"},{"key":"2026093002114755200_vbag244-B6","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-025-68186-2"},{"key":"2026093002114755200_vbag244-B7","doi-asserted-by":"crossref","first-page":"6483","DOI":"10.1038\/s41467-025-61673-6","article-title":"Library-based virtual match-between-runs quantification in GlyPep-Quant improves site-specific glycan identification","volume":"16","author":"Zhu","year":"2025","journal-title":"Nat Commun"}],"container-title":["Bioinformatics Advances"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformaticsadvances\/advance-article-pdf\/doi\/10.1093\/bioadv\/vbag244\/70772371\/vbag244.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformaticsadvances\/article-pdf\/6\/1\/vbag244\/70772371\/vbag244.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformaticsadvances\/article-pdf\/6\/1\/vbag244\/70772371\/vbag244.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T06:11:56Z","timestamp":1790748716000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformaticsadvances\/article\/doi\/10.1093\/bioadv\/vbag244\/8769630"}},"subtitle":[],"editor":[{"given":"Alex","family":"Bateman","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2026]]},"references-count":7,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026,1,7]]}},"URL":"https:\/\/doi.org\/10.1093\/bioadv\/vbag244","relation":{},"ISSN":["2635-0041"],"issn-type":[{"value":"2635-0041","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2026]]},"published":{"date-parts":[[2026]]},"article-number":"vbag244"}}