{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,4]],"date-time":"2026-03-04T11:12:02Z","timestamp":1772622722319,"version":"3.50.1"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"15","license":[{"start":{"date-parts":[[2020,5,29]],"date-time":"2020-05-29T00:00:00Z","timestamp":1590710400000},"content-version":"vor","delay-in-days":1,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"European Union\u2019s Horizon 2020","award":["HBM4EU"],"award-info":[{"award-number":["HBM4EU"]}]},{"name":"European Union\u2019s Horizon 2020","award":["733032"],"award-info":[{"award-number":["733032"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Exposure to pesticides may lead to adverse health effects in human populations, in particular vulnerable groups. The main long-term health concerns are neurodevelopmental disorders, carcinogenicity as well as endocrine disruption possibly leading to reproductive and metabolic disorders. Adverse outcome pathways (AOP) consist in linear representations of mechanistic perturbations at different levels of the biological organization. Although AOPs are chemical-agnostic, they can provide a better understanding of the Mode of Action of pesticides and can support a rational identification of effect markers.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>With the increasing amount of scientific literature and the development of biological databases, investigation of putative links between pesticides, from various chemical groups and AOPs using the biological events present in the AOP-Wiki database is now feasible. To identify co-occurrence between a specific pesticide and a biological event in scientific abstracts from the PubMed database, we used an updated version of the artificial intelligence-based AOP-helpFinder tool. This allowed us to decipher multiple links between the studied substances and molecular initiating events, key events and adverse outcomes. These results were collected, structured and presented in a web application named AOP4EUpest that can support regulatory assessment of the prioritized pesticides and trigger new epidemiological and experimental studies.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>http:\/\/www.biomedicale.parisdescartes.fr\/aop4EUpest\/home.php.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa545","type":"journal-article","created":{"date-parts":[[2020,5,23]],"date-time":"2020-05-23T11:14:30Z","timestamp":1590232470000},"page":"4379-4381","source":"Crossref","is-referenced-by-count":24,"title":["AOP4EUpest: mapping of pesticides in adverse outcome pathways using a text mining tool"],"prefix":"10.1093","volume":"36","author":[{"given":"Florence","family":"Jornod","sequence":"first","affiliation":[{"name":"Universit\u00e9 de Paris , T3S, Inserm UMR-S1124"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maryl\u00e8ne","family":"Rugard","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Paris , T3S, Inserm UMR-S1124"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Luc","family":"Tamisier","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Paris , SPPIN CNRS UMR 8003, Paris F-75006, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xavier","family":"Coumoul","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Paris , T3S, Inserm UMR-S1124"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Helle R","family":"Andersen","sequence":"additional","affiliation":[{"name":"Department of Environmental Medicine, Institute of Public Health, University of Southern Denmark , 5000 Odense C, Denmark"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Robert","family":"Barouki","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Paris , T3S, Inserm UMR-S1124"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Karine","family":"Audouze","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Paris , T3S, Inserm UMR-S1124"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,5,28]]},"reference":[{"key":"2023062312041571000_btaa545-B1","doi-asserted-by":"crossref","first-page":"5391","DOI":"10.1093\/bioinformatics\/btz570","article-title":"sAOP: linking chemical stressors to adverse outcomes pathway networks","volume":"35","author":"Aguayo-Orozco","year":"2019","journal-title":"Bioinformatics"},{"key":"2023062312041571000_btaa545-B2","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1289\/ehp.10790","article-title":"Impaired reproductive development in sons of women occupationally exposed to pesticides during pregnancy","volume":"116","author":"Andersen","year":"2008","journal-title":"Environ. Health Perspect"},{"key":"2023062312041571000_btaa545-B3","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.ntt.2014.10.006","article-title":"Occupational pesticide exposure in early pregnancy associated with sex-specific neurobehavioral deficits in the children at school age","volume":"47","author":"Andersen","year":"2015","journal-title":"Neurotoxicol. Teratol"},{"key":"2023062312041571000_btaa545-B4","doi-asserted-by":"crossref","first-page":"730","DOI":"10.1002\/etc.34","article-title":"Adverse outcome pathways: a conceptual framework to support ecotoxicology research and risk assessment","volume":"29","author":"Ankley","year":"2010","journal-title":"Environ. Toxicol. Chem"},{"key":"2023062312041571000_btaa545-B5","doi-asserted-by":"crossref","first-page":"2644","DOI":"10.1002\/ijc.29631","article-title":"Home pesticide exposures and risk of childhood leukemia: findings from the childhood leukemia international consortium","volume":"137","author":"Bailey","year":"2015","journal-title":"Int. J. Cancer"},{"key":"2023062312041571000_btaa545-B6","doi-asserted-by":"crossref","first-page":"14","DOI":"10.1186\/s12302-019-0195-z","article-title":"Prioritization of hazards of novel flame retardants using the mechanistic toxicology information from ToxCast and adverse outcome pathways","volume":"31","author":"Bajard","year":"2019","journal-title":"Environ. Sci. Eur"},{"key":"2023062312041571000_btaa545-B7","doi-asserted-by":"crossref","first-page":"W257","DOI":"10.1093\/nar\/gky318","article-title":"ProTox-II: a webserver for the prediction of toxicity of chemicals","volume":"46","author":"Banerjee","year":"2018","journal-title":"Nucleic Acids Res"},{"key":"2023062312041571000_btaa545-B8","doi-asserted-by":"crossref","first-page":"47005","DOI":"10.1289\/EHP4200","article-title":"Linking bisphenol S to adverse outcome pathways using a combined text mining and systems biology approach","volume":"127","author":"Carvaillo","year":"2019","journal-title":"Environ. Health Perspect"},{"key":"2023062312041571000_btaa545-B9","doi-asserted-by":"crossref","first-page":"11","DOI":"10.14573\/altex.1304241","article-title":"A computational approach to mechanistic and predictive toxicology of pesticides","volume":"31","author":"Kongsbak","year":"2014","journal-title":"ALTEX"},{"key":"2023062312041571000_btaa545-B10","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1007\/s40572-016-0079-y","article-title":"Accelerating adverse outcome pathway development using publicly available data sources","volume":"3","author":"Oki","year":"2016","journal-title":"Curr. Environ. Health Rep"},{"key":"2023062312041571000_btaa545-B11","doi-asserted-by":"crossref","first-page":"32","DOI":"10.1093\/toxsci\/kfz214","article-title":"Deciphering adverse outcome pathway network linked to bisphenol F using text mining and systems toxicology approaches","volume":"173","author":"Rugard","year":"2020","journal-title":"Toxicol. Sci"},{"key":"2023062312041571000_btaa545-B12","doi-asserted-by":"crossref","first-page":"1231","DOI":"10.1093\/bioinformatics\/btt112","article-title":"HExpoChem: a systems biology resource to explore human exposure to chemicals","volume":"29","author":"Taboureau","year":"2013","journal-title":"Bioinformatics"},{"key":"2023062312041571000_btaa545-B13","doi-asserted-by":"crossref","first-page":"61","DOI":"10.1186\/s13321-017-0247-6","article-title":"The CompTox Chemistry Dashboard: a community data resource for environmental chemistry","volume":"9","author":"Williams","year":"2017","journal-title":"J. Cheminform"},{"key":"2023062312041571000_btaa545-B14","first-page":"287","article-title":"Computational systems biology as an animal-free approach to characterize toxicological effects of persistent organic pollutants","volume":"37","author":"Wu","year":"2020","journal-title":"ALTEX"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btaa545\/33561509\/btaa545.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/36\/15\/4379\/50671616\/bioinformatics_36_15_4379.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/36\/15\/4379\/50671616\/bioinformatics_36_15_4379.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,6,24]],"date-time":"2023-06-24T21:56:42Z","timestamp":1687643802000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/36\/15\/4379\/5848406"}},"subtitle":[],"editor":[{"given":"Jonathan","family":"Wren","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2020,5,28]]},"references-count":14,"journal-issue":{"issue":"15","published-print":{"date-parts":[[2020,8,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btaa545","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2020,8,1]]},"published":{"date-parts":[[2020,5,28]]}}}