{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,21]],"date-time":"2026-10-21T13:52:46Z","timestamp":1792590766410,"version":"4.5.0"},"reference-count":59,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2024,11,8]],"date-time":"2024-11-08T00:00:00Z","timestamp":1731024000000},"content-version":"vor","delay-in-days":312,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,11,8]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>In recent years, peptides have gained significant relevance due to their therapeutic properties. The surge in peptide production and synthesis has generated vast amounts of data, enabling the creation of comprehensive databases and information repositories. Advances in sequencing techniques and artificial intelligence have further accelerated the design of tailor-made peptides. However, leveraging these techniques requires versatile and continuously updated storage systems, along with tools that facilitate peptide research and the implementation of machine learning for predictive systems. This work introduces Peptipedia v2.0, one of the most comprehensive public repositories of peptides, supporting biotechnological research by simplifying peptide study and annotation. Peptipedia v2.0 has expanded its collection by over 45% with peptide sequences that have reported biological activities. The functional biological activity tree has been revised and enhanced, incorporating new categories such as cosmetic and dermatological activities, molecular binding, and antiageing properties. Utilizing protein language models and machine learning, more than 90 binary classification models have been trained, validated, and incorporated into Peptipedia v2.0. These models exhibit average sensitivities and specificities of 0.877\u00b10.0530 and 0.873\u00b10.054, respectively, facilitating the annotation of more than 3.6 million peptide sequences with unknown biological activities, also registered in Peptipedia v2.0. Additionally, Peptipedia v2.0 introduces description tools based on structural and ontological properties and user-friendly machine learning tools to facilitate the application of machine learning strategies to study peptide sequences.<\/jats:p>\n                  <jats:p>Database URL: https:\/\/peptipedia.cl\/<\/jats:p>","DOI":"10.1093\/database\/baae113","type":"journal-article","created":{"date-parts":[[2024,9,27]],"date-time":"2024-09-27T23:20:21Z","timestamp":1727479221000},"source":"Crossref","is-referenced-by-count":33,"title":["Peptipedia v2.0: a peptide sequence database and user-friendly web platform. A major update"],"prefix":"10.1093","volume":"2024","author":[{"ORCID":"https:\/\/orcid.org\/0009-0004-2344-9860","authenticated-orcid":false,"given":"Gabriel","family":"Cabas-Mora","sequence":"first","affiliation":[{"name":"Departamento de Ingenier\u00eda en Computaci\u00f3n, Universidad de Magallanes , Av. Pdte. Manuel Bulnes 01855, Punta Arenas 6210427,","place":["Chile"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6769-3281","authenticated-orcid":false,"given":"Anamar\u00eda","family":"Daza","sequence":"additional","affiliation":[{"name":"Centre for Biotechnology and Bioengineering, CeBiB, Universidad de Chile , Avenida Beauchef 851, Santiago 8320000,","place":["Chile"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-1438-1938","authenticated-orcid":false,"given":"Nicole","family":"Soto-Garc\u00eda","sequence":"additional","affiliation":[{"name":"Departamento de Ingenier\u00eda en Computaci\u00f3n, Universidad de Magallanes , Av. Pdte. 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Los Flamencos 01364, Punta Arenas 6210005,","place":["Chile"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6354-3609","authenticated-orcid":false,"given":"Julieta H","family":"Sep\u00falveda Ya\u00f1ez","sequence":"additional","affiliation":[{"name":"Centro Asistencial de Docencia e Investigaci\u00f3n, CADI, Universidad de Magallanes , Av. Los Flamencos 01364, Punta Arenas 6210005,","place":["Chile"]},{"name":"Facultad de Ciencias de la Salud, Universidad de Magallanes , Av. Pdte. Manuel Bulnes 01855, Punta Arenas 6210427,","place":["Chile"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0089-7156","authenticated-orcid":false,"given":"Mehdi D","family":"Davari","sequence":"additional","affiliation":[{"name":"Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, Halle 06120,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3568-9595","authenticated-orcid":false,"given":"Frederic","family":"Cadet","sequence":"additional","affiliation":[{"name":"PEACCEL, Artificial Intelligence Department, AI for Biologics , Paris 75013,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6053-7019","authenticated-orcid":false,"given":"\u00c1lvaro","family":"Olivera-Nappa","sequence":"additional","affiliation":[{"name":"Centre for Biotechnology and Bioengineering, CeBiB, Universidad de Chile , Avenida Beauchef 851, Santiago 8320000,","place":["Chile"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9519-8862","authenticated-orcid":false,"given":"Roberto","family":"Uribe-Paredes","sequence":"additional","affiliation":[{"name":"Departamento de Ingenier\u00eda en Computaci\u00f3n, Universidad de Magallanes , Av. 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