{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,5]],"date-time":"2026-08-05T01:07:26Z","timestamp":1785892046417,"version":"3.56.0"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2023,6,24]],"date-time":"2023-06-24T00:00:00Z","timestamp":1687564800000},"content-version":"vor","delay-in-days":23,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"European Union Horizon 2020 Programme","award":["814426"],"award-info":[{"award-number":["814426"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,6,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Biological data repositories are an invaluable source of publicly available research evidence. Unfortunately, the lack of convergence of the scientific community on a common metadata annotation strategy has resulted in large amounts of data with low FAIRness (Findable, Accessible, Interoperable and Reusable). The possibility of generating high-quality insights from their integration relies on data curation, which is typically an error-prone process while also being expensive in terms of time and human labour. Here, we present ESPERANTO, an innovative framework that enables a standardized semi-supervised harmonization and integration of toxicogenomics metadata and increases their FAIRness in a Good Laboratory Practice-compliant fashion. The harmonization across metadata is guaranteed with the definition of an ad hoc vocabulary. The tool interface is designed to support the user in metadata harmonization in a user-friendly manner, regardless of the background and the type of expertise.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>ESPERANTO and its user manual are freely available for academic purposes at https:\/\/github.com\/fhaive\/esperanto. The input and the results showcased in Supplementary File S1 are available at the same link.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btad405","type":"journal-article","created":{"date-parts":[[2023,6,24]],"date-time":"2023-06-24T20:42:25Z","timestamp":1687639345000},"source":"Crossref","is-referenced-by-count":9,"title":["ESPERANTO: a GLP-field sEmi-SuPERvised toxicogenomics metadAta curatioN TOol"],"prefix":"10.1093","volume":"39","author":[{"given":"Emanuele","family":"Di Lieto","sequence":"first","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Angela","family":"Serra","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"},{"name":"Tampere Institute for Advanced Study , Tampere, 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Simo Iisakki","family":"Inkala","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laura Aliisa","family":"Saarim\u00e4ki","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Giusy","family":"del Giudice","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michele","family":"Fratello","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Veera","family":"Hautanen","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria","family":"Annala","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Antonio","family":"Federico","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"},{"name":"Tampere Institute for Advanced Study , Tampere, 33520, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9195-9003","authenticated-orcid":false,"given":"Dario","family":"Greco","sequence":"additional","affiliation":[{"name":"FHAIVE, Faculty of Medicine and Health Technology, Tampere University , Tampere 33520, Finland"},{"name":"Institute of Biotechnology, Helsinki Institute of Life Sciences (HiLife), University of Helsinki , Helsinki 00790, Finland"},{"name":"Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki , Helsinki 00790, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,6,24]]},"reference":[{"key":"2023070312004040300_btad405-B1","doi-asserted-by":"crossref","first-page":"baaa006","DOI":"10.1093\/database\/baaa006","article-title":"Text mining meets community curation: a newly designed curation platform to improve author experience and participation at 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