{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,19]],"date-time":"2026-03-19T06:09:02Z","timestamp":1773900542023,"version":"3.50.1"},"reference-count":7,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2021,12,15]],"date-time":"2021-12-15T00:00:00Z","timestamp":1639526400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"INCEPTION project","award":["PIA\/ANR-16-CONV-0005"],"award-info":[{"award-number":["PIA\/ANR-16-CONV-0005"]}]},{"name":"CRI through \u2018Ecole Doctorale FIRE\u2014Programme Bettencourt"},{"name":"NSERC Discovery grant, FRQ-NT Team grant","award":["PR-284708"],"award-info":[{"award-number":["PR-284708"]}]},{"name":"Genome Qu\u00e9bec Integration Genomics"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,2,7]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Summary<\/jats:title><jats:p>RNA 3D architectures are stabilized by sophisticated networks of (non-canonical) base pair interactions, which can be conveniently encoded as multi-relational graphs and efficiently exploited by graph theoretical approaches and recent progresses in machine learning techniques. RNAglib is a library that eases the use of this representation, by providing clean data, methods to load it in machine learning pipelines and graph-based deep learning models suited for this representation. RNAglib also offers other utilities to model RNA with 2.5 D graphs, such as drawing tools, comparison functions or baseline performances on RNA applications.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>The method is distributed as a pip package, RNAglib. Data are available in a repository and can be accessed on rnaglib's web page. The source code, data and documentation are available at https:\/\/rnaglib.cs.mcgill.ca.<\/jats:p><\/jats:sec><jats:sec><jats:title>Supplementary information<\/jats:title><jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btab844","type":"journal-article","created":{"date-parts":[[2021,12,10]],"date-time":"2021-12-10T20:17:56Z","timestamp":1639167476000},"page":"1458-1459","source":"Crossref","is-referenced-by-count":10,"title":["RNAglib: a python package for RNA 2.5 D graphs"],"prefix":"10.1093","volume":"38","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4664-754X","authenticated-orcid":false,"given":"Vincent","family":"Mallet","sequence":"first","affiliation":[{"name":"Structural Bioinformatics Unit, Department of Structural Biology and Chemistry, Institut Pasteur, CNRS UMR3528, C3BI, USR3756 , Paris 75724, France"},{"name":"Mines ParisTech, Paris-Sciences-et-Lettres Research University, Center for Computational Biology , Paris 75272, France"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8742-8795","authenticated-orcid":false,"given":"Carlos","family":"Oliver","sequence":"additional","affiliation":[{"name":"School of Computer Science, McGill University , Montr\u00e9al, QC H3A 0E9, Canada"},{"name":"Montreal Institute for Learning Algorithms , Montr\u00e9al, QC H2S 3H1, Canada"}]},{"given":"Jonathan","family":"Broadbent","sequence":"additional","affiliation":[{"name":"School of Computer Science, McGill University , Montr\u00e9al, QC H3A 0E9, Canada"}]},{"given":"William L","family":"Hamilton","sequence":"additional","affiliation":[{"name":"School of Computer Science, McGill University , Montr\u00e9al, QC H3A 0E9, Canada"},{"name":"Montreal Institute for Learning Algorithms , Montr\u00e9al, QC H2S 3H1, Canada"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2561-7117","authenticated-orcid":false,"given":"J\u00e9r\u00f4me","family":"Waldisp\u00fchl","sequence":"additional","affiliation":[{"name":"School of Computer Science, McGill University , Montr\u00e9al, QC H3A 0E9, Canada"}]}],"member":"286","published-online":{"date-parts":[[2021,12,15]]},"reference":[{"key":"2023020108573298400_btab844-B1","doi-asserted-by":"crossref","first-page":"2469","DOI":"10.1056\/NEJMcibr2009737","article-title":"Amplifying RNA vaccine development","volume":"382","author":"Fuller","year":"2020","journal-title":"N. 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