{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"institution":[{"name":"bioRxiv"}],"indexed":{"date-parts":[[2026,1,15]],"date-time":"2026-01-15T10:36:09Z","timestamp":1768473369328,"version":"3.49.0"},"posted":{"date-parts":[[2019,2,4]]},"group-title":"Bioinformatics","reference-count":9,"publisher":"openRxiv","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"accepted":{"date-parts":[[2019,2,4]]},"abstract":"<jats:title>Summary<\/jats:title>\n                <jats:p>Neoepitopes generated by amino acid variants specifically found in pathogens or cancer cells are gaining momentum in immunotherapy development. HABIT (HLA Binding InTelligence) is a web platform designed to generate and analyse machine learning-based T cell epitope predictions for improved neoepitope discovery.<\/jats:p>\n                <jats:sec>\n                  <jats:title>Availability and Implementation<\/jats:title>\n                  <jats:p>\n                    HABIT is available at\n                    <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/habit.evobiomed.com\">http:\/\/habit.evobiomed.com<\/jats:ext-link>\n                    . Peptide-HLA binding predictions by NetMHCpan 4.0 and NetMHCIIpan 3.1 were implemented in a web application for interactive data exploration using shiny package powered by RStudio.\n                  <\/jats:p>\n                <\/jats:sec>\n                <jats:sec>\n                  <jats:title>Contact<\/jats:title>\n                  <jats:p>\n                    <jats:email>nosorio@med.uminho.pt<\/jats:email>\n                  <\/jats:p>\n                <\/jats:sec>\n                <jats:sec sec-type=\"supplementary-material\">\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data and video tutorials are available online.<\/jats:p>\n                <\/jats:sec>","DOI":"10.1101\/535716","type":"posted-content","created":{"date-parts":[[2019,2,4]],"date-time":"2019-02-04T16:35:14Z","timestamp":1549298114000},"source":"Crossref","is-referenced-by-count":1,"title":["HABIT \u2013 a webserver for interactive T cell neoepitope discovery"],"prefix":"10.64898","author":[{"given":"Joana","family":"Martins","sequence":"first","affiliation":[]},{"given":"Carlos","family":"Magalh\u00e3es","sequence":"additional","affiliation":[]},{"given":"V\u00edtor","family":"Vieira","sequence":"additional","affiliation":[]},{"given":"Miguel","family":"Rocha","sequence":"additional","affiliation":[]},{"given":"Nuno S.","family":"Os\u00f3rio","sequence":"additional","affiliation":[]}],"member":"54368","reference":[{"key":"2019122007242706000_535716v1.1","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-immunol-032712-095910"},{"key":"2019122007242706000_535716v1.2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-018-0810-y"},{"key":"2019122007242706000_535716v1.3","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-immunol-041015-055420"},{"key":"2019122007242706000_535716v1.4","doi-asserted-by":"crossref","first-page":"3360","DOI":"10.4049\/jimmunol.1700893","article-title":"NetMHCpan-4.0: Improved Peptide\u2013MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data","volume":"199","year":"2017","journal-title":"The Journal of Immunology"},{"key":"2019122007242706000_535716v1.5","doi-asserted-by":"publisher","DOI":"10.1007\/s00251-015-0873-y"},{"key":"2019122007242706000_535716v1.6","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv123"},{"key":"2019122007242706000_535716v1.7","first-page":"1522","article-title":"An automated benchmarking platform for MHC class II binding prediction methods","volume":"34","year":"2017","journal-title":"Bioinformatics"},{"key":"2019122007242706000_535716v1.8","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1111\/iji.12214","article-title":"Computer-aided design of T-cell epitope-based vaccines: addressing population coverage","volume":"42","year":"2015","journal-title":"International Journal of Immunogenetics"},{"key":"2019122007242706000_535716v1.9","first-page":"941","article-title":"COSMIC: the Catalogue Of Somatic Mutations In Cancer","volume":"47","year":"2018","journal-title":"Nucleic Acids Research"}],"container-title":[],"original-title":[],"link":[{"URL":"https:\/\/syndication.highwire.org\/content\/doi\/10.1101\/535716","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,14]],"date-time":"2026-01-14T22:05:51Z","timestamp":1768428351000},"score":1,"resource":{"primary":{"URL":"http:\/\/biorxiv.org\/lookup\/doi\/10.1101\/535716"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,2,4]]},"references-count":9,"URL":"https:\/\/doi.org\/10.1101\/535716","relation":{},"subject":[],"published":{"date-parts":[[2019,2,4]]},"subtype":"preprint"}}