{"id":"https://openalex.org/W4407083662","doi":"https://doi.org/10.1186/s13321-024-00925-x","title":"PretoxTM: a text mining system for extracting treatment-related findings from preclinical toxicology reports","display_name":"PretoxTM: a text mining system for extracting treatment-related findings from preclinical toxicology reports","publication_year":2025,"publication_date":"2025-02-03","ids":{"openalex":"https://openalex.org/W4407083662","doi":"https://doi.org/10.1186/s13321-024-00925-x","pmid":"https://pubmed.ncbi.nlm.nih.gov/39901182"},"language":"en","primary_location":{"id":"doi:10.1186/s13321-024-00925-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-024-00925-x","pdf_url":"https://link.springer.com/content/pdf/10.1186/s13321-024-00925-x.pdf","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/s13321-024-00925-x.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075990777","display_name":"Javier Corvi","orcid":"https://orcid.org/0000-0003-3241-3400"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]},{"id":"https://openalex.org/I95013407","display_name":"Universidad Pablo de Olavide","ror":"https://ror.org/02z749649","country_code":"ES","type":"education","lineage":["https://openalex.org/I95013407"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Javier Corvi","raw_affiliation_strings":["Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain. javier.corvi@disgenet.com","MedBioInformatics Solutions, Barcelona, Spain. javier.corvi@disgenet.com","University of Barcelona, Barcelona, Spain. javier.corvi@disgenet.com","MedBioInformatics Solutions, Barcelona, Spain","Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain","University of Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain. javier.corvi@disgenet.com","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]},{"raw_affiliation_string":"MedBioInformatics Solutions, Barcelona, Spain. javier.corvi@disgenet.com","institution_ids":["https://openalex.org/I95013407"]},{"raw_affiliation_string":"University of Barcelona, Barcelona, Spain. javier.corvi@disgenet.com","institution_ids":["https://openalex.org/I71999127"]},{"raw_affiliation_string":"MedBioInformatics Solutions, Barcelona, Spain","institution_ids":[]},{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]},{"raw_affiliation_string":"University of Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5116126502","display_name":"Nicol\u00e1s D\u00edaz-Roussel","orcid":null},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Nicol\u00e1s D\u00edaz-Roussel","raw_affiliation_strings":["Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078455671","display_name":"Jos\u00e9 M. Fern\u00e1ndez","orcid":"https://orcid.org/0000-0002-4806-5140"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 M. Fern\u00e1ndez","raw_affiliation_strings":["Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008516515","display_name":"Francesco Ronzano","orcid":null},"institutions":[{"id":"https://openalex.org/I4210156109","display_name":"Hospital del Mar Research Institute","ror":"https://ror.org/042nkmz09","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210156109","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Francesco Ronzano","raw_affiliation_strings":["Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain","institution_ids":["https://openalex.org/I4210156109"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073425112","display_name":"Emilio Centeno","orcid":null},"institutions":[{"id":"https://openalex.org/I4210156109","display_name":"Hospital del Mar Research Institute","ror":"https://ror.org/042nkmz09","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210156109","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Emilio Centeno","raw_affiliation_strings":["Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain","institution_ids":["https://openalex.org/I4210156109"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078361247","display_name":"Pablo Accuosto","orcid":"https://orcid.org/0000-0002-3493-6013"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Pablo Accuosto","raw_affiliation_strings":["MedBioInformatics Solutions, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"MedBioInformatics Solutions, Barcelona, Spain","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026567866","display_name":"Celine Ibrahim","orcid":null},"institutions":[{"id":"https://openalex.org/I67348948","display_name":"Bayer (Germany)","ror":"https://ror.org/04hmn8g73","country_code":"DE","type":"company","lineage":["https://openalex.org/I67348948"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Celine Ibrahim","raw_affiliation_strings":["Bayer AG, In Vitro Safety, Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Bayer AG, In Vitro Safety, Berlin, Germany","institution_ids":["https://openalex.org/I67348948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108727145","display_name":"Shoji Asakura","orcid":null},"institutions":[{"id":"https://openalex.org/I55881946","display_name":"Eisai (Japan)","ror":"https://ror.org/04vvh7p27","country_code":"JP","type":"company","lineage":["https://openalex.org/I55881946"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shoji Asakura","raw_affiliation_strings":["Eisai, Tsukuba, Ibaraki, Japan"],"affiliations":[{"raw_affiliation_string":"Eisai, Tsukuba, Ibaraki, Japan","institution_ids":["https://openalex.org/I55881946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059885874","display_name":"Frank Bringezu","orcid":"https://orcid.org/0000-0002-3628-6317"},"institutions":[{"id":"https://openalex.org/I164928964","display_name":"Merck (Germany)","ror":"https://ror.org/04b2dty93","country_code":"DE","type":"company","lineage":["https://openalex.org/I164928964"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Frank Bringezu","raw_affiliation_strings":["Chemical and Preclinical Safety, Merck Healthcare KGaA, Darmstadt, Germany"],"affiliations":[{"raw_affiliation_string":"Chemical and Preclinical Safety, Merck Healthcare KGaA, Darmstadt, Germany","institution_ids":["https://openalex.org/I164928964"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009499536","display_name":"Mirjam Fr\u00f6hlicher","orcid":null},"institutions":[{"id":"https://openalex.org/I1283582996","display_name":"Novartis (Switzerland)","ror":"https://ror.org/02f9zrr09","country_code":"CH","type":"company","lineage":["https://openalex.org/I1283582996"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Mirjam Fr\u00f6hlicher","raw_affiliation_strings":["Translational Medicine, Preclinical Safety, Novartis Biomedical Research, Basel, Switzerland"],"affiliations":[{"raw_affiliation_string":"Translational Medicine, Preclinical Safety, Novartis Biomedical Research, Basel, Switzerland","institution_ids":["https://openalex.org/I1283582996"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003122127","display_name":"Annika Kreuchwig","orcid":"https://orcid.org/0000-0001-6513-9693"},"institutions":[{"id":"https://openalex.org/I67348948","display_name":"Bayer (Germany)","ror":"https://ror.org/04hmn8g73","country_code":"DE","type":"company","lineage":["https://openalex.org/I67348948"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Annika Kreuchwig","raw_affiliation_strings":["Bayer AG, In Vitro Safety, Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Bayer AG, In Vitro Safety, Berlin, Germany","institution_ids":["https://openalex.org/I67348948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077282781","display_name":"Yasuyoshi Nogami","orcid":null},"institutions":[{"id":"https://openalex.org/I55881946","display_name":"Eisai (Japan)","ror":"https://ror.org/04vvh7p27","country_code":"JP","type":"company","lineage":["https://openalex.org/I55881946"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yoko Nogami","raw_affiliation_strings":["Eisai, Tsukuba, Ibaraki, Japan"],"affiliations":[{"raw_affiliation_string":"Eisai, Tsukuba, Ibaraki, Japan","institution_ids":["https://openalex.org/I55881946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5116126501","display_name":"Jeong Rih","orcid":null},"institutions":[{"id":"https://openalex.org/I183367347","display_name":"Ipsen (France)","ror":"https://ror.org/00d801g55","country_code":"FR","type":"company","lineage":["https://openalex.org/I183367347"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Jeong Rih","raw_affiliation_strings":["Ipsen Innovation, Les Ulis, France"],"affiliations":[{"raw_affiliation_string":"Ipsen Innovation, Les Ulis, France","institution_ids":["https://openalex.org/I183367347"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002036038","display_name":"Raul Rodriguez\u2010Esteban","orcid":"https://orcid.org/0000-0002-9494-9609"},"institutions":[{"id":"https://openalex.org/I118019719","display_name":"Roche (Switzerland)","ror":"https://ror.org/00by1q217","country_code":"CH","type":"company","lineage":["https://openalex.org/I118019719"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Raul Rodriguez-Esteban","raw_affiliation_strings":["Roche Innovation Center Basel, Basel, Switzerland"],"affiliations":[{"raw_affiliation_string":"Roche Innovation Center Basel, Basel, Switzerland","institution_ids":["https://openalex.org/I118019719"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009227862","display_name":"Nicolas Sajot","orcid":null},"institutions":[{"id":"https://openalex.org/I4210135308","display_name":"Servier (France)","ror":"https://ror.org/034e7c066","country_code":"FR","type":"company","lineage":["https://openalex.org/I4210135308"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Nicolas Sajot","raw_affiliation_strings":["Servier, Gif-sur-Yvette, France"],"affiliations":[{"raw_affiliation_string":"Servier, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I4210135308"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082222979","display_name":"Joerg Wichard","orcid":"https://orcid.org/0000-0002-6846-7446"},"institutions":[{"id":"https://openalex.org/I67348948","display_name":"Bayer (Germany)","ror":"https://ror.org/04hmn8g73","country_code":"DE","type":"company","lineage":["https://openalex.org/I67348948"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Joerg Wichard","raw_affiliation_strings":["Bayer AG, In Vitro Safety, Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Bayer AG, In Vitro Safety, Berlin, Germany","institution_ids":["https://openalex.org/I67348948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115594109","display_name":"H. Wu","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Heng-Yi Michael Wu","raw_affiliation_strings":["Genentech Research and Early Development (gRED) Computational Sciences, Genentech, Inc., South San Francisco, CA, USA"],"affiliations":[{"raw_affiliation_string":"Genentech Research and Early Development (gRED) Computational Sciences, Genentech, Inc., South San Francisco, CA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066504637","display_name":"Philip Drew","orcid":"https://orcid.org/0000-0003-4816-527X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Philip Drew","raw_affiliation_strings":["PDS Consultants, Leicester, UK"],"affiliations":[{"raw_affiliation_string":"PDS Consultants, Leicester, UK","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076121810","display_name":"Thomas Steger\u2010Hartmann","orcid":"https://orcid.org/0000-0003-4258-3008"},"institutions":[{"id":"https://openalex.org/I67348948","display_name":"Bayer (Germany)","ror":"https://ror.org/04hmn8g73","country_code":"DE","type":"company","lineage":["https://openalex.org/I67348948"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Thomas Steger-Hartmann","raw_affiliation_strings":["Bayer AG, In Vitro Safety, Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Bayer AG, In Vitro Safety, Berlin, Germany","institution_ids":["https://openalex.org/I67348948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101444942","display_name":"Alfonso Valencia","orcid":"https://orcid.org/0000-0002-7276-4240"},"institutions":[{"id":"https://openalex.org/I11932220","display_name":"Instituci\u00f3 Catalana de Recerca i Estudis Avan\u00e7ats","ror":"https://ror.org/0371hy230","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I11932220"]},{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Alfonso Valencia","raw_affiliation_strings":["Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain","Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain","institution_ids":["https://openalex.org/I11932220"]},{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028427590","display_name":"Laura I. Furlong","orcid":"https://orcid.org/0000-0002-9383-528X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Laura I. Furlong","raw_affiliation_strings":["MedBioInformatics Solutions, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"MedBioInformatics Solutions, Barcelona, Spain","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059757648","display_name":"Salvador Capella-Guti\u00e9rrez","orcid":"https://orcid.org/0000-0002-0309-604X"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Salvador Capella-Gutierrez","raw_affiliation_strings":["Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain. salvador.capella@bsc.es","Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain. salvador.capella@bsc.es","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]},{"raw_affiliation_string":"Life Sciences Department, Barcelona Supercomputing Center (BSC), Barcelona, Spain","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]}]}],"institutions":[],"countries_distinct_count":5,"institutions_distinct_count":22,"corresponding_author_ids":["https://openalex.org/A5075990777"],"corresponding_institution_ids":["https://openalex.org/I2799803557","https://openalex.org/I71999127","https://openalex.org/I95013407","https://openalex.org/I9617848"],"apc_list":{"value":1290,"currency":"GBP","value_usd":1582},"apc_paid":{"value":1290,"currency":"GBP","value_usd":1582},"fwci":1.685,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.81247328,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"17","issue":"1","first_page":"15","last_page":"15"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.9775000214576721,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13083","display_name":"Advanced Text Analysis Techniques","score":0.9577000141143799,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5503114461898804},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.46679195761680603},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3929890990257263},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3489089608192444},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3361765146255493}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5503114461898804},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.46679195761680603},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3929890990257263},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3489089608192444},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3361765146255493}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/s13321-024-00925-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-024-00925-x","pdf_url":"https://link.springer.com/content/pdf/10.1186/s13321-024-00925-x.pdf","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},{"id":"pmid:39901182","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39901182","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of cheminformatics","raw_type":null},{"id":"pmh:oai:repositori-api.upf.edu:10230/72077","is_oa":true,"landing_page_url":"http://hdl.handle.net/10230/72077","pdf_url":"https://repositori.upf.edu/bitstreams/a9bbe325-e183-485a-bacc-b5f54b1cc953/download","source":{"id":"https://openalex.org/S4306402615","display_name":"Repositori digital de la UPF (Universitat Pompeu Fabra)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I170486558","host_organization_name":"Universitat Pompeu Fabra","host_organization_lineage":["https://openalex.org/I170486558"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:pubmedcentral.nih.gov:11792311","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11792311","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11792311/pdf/13321_2024_Article_925.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Cheminform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:c0f1a6247ef343cab56757ffe7449629","is_oa":true,"landing_page_url":"https://doaj.org/article/c0f1a6247ef343cab56757ffe7449629","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Cheminformatics, Vol 17, Iss 1, Pp 1-23 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s13321-024-00925-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13321-024-00925-x","pdf_url":"https://link.springer.com/content/pdf/10.1186/s13321-024-00925-x.pdf","source":{"id":"https://openalex.org/S180838163","display_name":"Journal of Cheminformatics","issn_l":"1758-2946","issn":["1758-2946"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Cheminformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4407083662.pdf"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W1567333450","https://openalex.org/W2001642682","https://openalex.org/W2040298842","https://openalex.org/W2086541519","https://openalex.org/W2123442489","https://openalex.org/W2140485652","https://openalex.org/W2141766660","https://openalex.org/W2159583324","https://openalex.org/W2516254529","https://openalex.org/W2761529199","https://openalex.org/W2774927939","https://openalex.org/W2800317565","https://openalex.org/W2883897757","https://openalex.org/W2897664477","https://openalex.org/W2908510526","https://openalex.org/W2911489562","https://openalex.org/W2963341956","https://openalex.org/W2963716420","https://openalex.org/W2983166786","https://openalex.org/W2996500226","https://openalex.org/W3009999522","https://openalex.org/W3014640853","https://openalex.org/W3021342370","https://openalex.org/W3046375318","https://openalex.org/W3093934881","https://openalex.org/W3099950029","https://openalex.org/W3106971548","https://openalex.org/W3129699164","https://openalex.org/W3130854907","https://openalex.org/W3135202150","https://openalex.org/W3172427031","https://openalex.org/W3174167596","https://openalex.org/W3196661343","https://openalex.org/W3203361503","https://openalex.org/W4200136492","https://openalex.org/W4285106586","https://openalex.org/W4288078008","https://openalex.org/W4297253404","https://openalex.org/W4300485781","https://openalex.org/W4313460860","https://openalex.org/W4321749402","https://openalex.org/W4327569469","https://openalex.org/W4327810158","https://openalex.org/W4380610193","https://openalex.org/W4381587418","https://openalex.org/W4382132796","https://openalex.org/W4385245566","https://openalex.org/W4385572421","https://openalex.org/W4389266155","https://openalex.org/W4390678101","https://openalex.org/W6600561556"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W3031052312","https://openalex.org/W4389568370","https://openalex.org/W3032375762","https://openalex.org/W1995515455","https://openalex.org/W2080531066","https://openalex.org/W3108674512","https://openalex.org/W1506200166"],"abstract_inverted_index":{"Over":[0],"the":[1,5,16,33,41,44,58,63,94,109,116,119,129,185,208,221,268,282],"last":[2],"few":[3],"decades":[4],"pharmaceutical":[6],"industry":[7],"has":[8,82],"generated":[9],"a":[10,164,261],"vast":[11],"corpus":[12,167,177],"of":[13,20,23,35,43,60,67,80,118,168,270],"knowledge":[14],"on":[15],"safety":[17,271],"and":[18,50,88,100,112,138,156,183,205,275],"efficacy":[19],"drugs.":[21],"Much":[22],"this":[24,61,68,248],"information":[25,70,198],"is":[26,71,163,199],"contained":[27],"in":[28,207,220,240,281],"toxicology":[29,143,174,257,265],"reports,":[30],"which":[31,188],"summarise":[32],"results":[34],"animal":[36,241],"studies":[37],"designed":[38,133],"to":[39,96,134,180,224,277],"analyse":[40,99],"effects":[42],"tested":[45],"compound,":[46],"including":[47],"unintended":[48],"pharmacological":[49],"toxic":[51],"effects,":[52],"known":[53],"as":[54,74],"treatment-related":[55,140,170,190,253],"findings.":[56],"Despite":[57],"potential":[59],"knowledge,":[62],"fact":[64],"that":[65],"most":[66],"relevant":[69],"only":[72],"available":[73],"unstructured":[75],"text":[76,213],"with":[77],"variable":[78],"degrees":[79],"digitisation":[81],"hampered":[83],"its":[84],"systematic":[85],"access,":[86],"use":[87],"exploitation.":[89],"Text":[90,127],"mining":[91,214],"technologies":[92],"have":[93,216],"ability":[95],"automatically":[97],"extract,":[98,136],"aggregate":[101],"such":[102],"information,":[103],"providing":[104],"valuable":[105,262],"new":[106],"insights":[107],"into":[108],"drug":[110,227,283],"discovery":[111],"development":[113,284],"process.":[114,285],"In":[115],"context":[117],"eTRANSAFE":[120],"project,":[121],"we":[122],"present":[123],"PretoxTM":[124,146,152,154,157,161,186,209,246],"(Preclinical":[125],"Toxicology":[126],"Mining),":[128],"first":[130],"system":[131],"specifically":[132],"detect,":[135],"organise":[137],"visualise":[139],"findings":[141,171,191,254],"from":[142,192,229,255],"reports.":[144,195,258],"The":[145,160,196],"tool":[147],"comprises":[148],"three":[149],"main":[150],"components:":[151],"Corpus,":[153],"Pipeline":[155],"Web":[158,210],"App.":[159],"Corpus":[162],"gold":[165],"standard":[166],"preclinical":[169,193,244,256],"annotated":[172],"by":[173,250],"experts.":[175],"This":[176,259],"was":[178],"used":[179,219],"develop,":[181],"train":[182],"validate":[184],"Pipeline,":[187],"extracts":[189],"study":[194],"extracted":[197],"then":[200],"presented":[201],"for":[202,236,264],"expert":[203],"visualisation":[204],"validation":[206],"App.Scientific":[211],"ContributionWhile":[212],"solutions":[215],"been":[217],"widely":[218],"clinical":[222],"domain":[223],"identify":[225],"adverse":[226,238],"reactions":[228],"various":[230],"sources,":[231],"no":[232],"similar":[233],"systems":[234],"exist":[235],"identifying":[237],"events":[239],"models":[242],"during":[243],"testing.":[245],"fills":[247],"gap":[249],"efficiently":[251],"extracting":[252],"provides":[260],"resource":[263],"research,":[266],"enhancing":[267],"efficiency":[269],"evaluations,":[272],"saving":[273],"time,":[274],"leading":[276],"more":[278],"effective":[279],"decision-making":[280]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
