{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,12]],"date-time":"2026-05-12T08:49:08Z","timestamp":1778575748638,"version":"3.51.4"},"reference-count":59,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2022,12,7]],"date-time":"2022-12-07T00:00:00Z","timestamp":1670371200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100012116","name":"EMBL-EBI","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100012116","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000780","name":"European Commission","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000780","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100010269","name":"Wellcome","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100014013","name":"UK Research and Innovation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100014013","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,1,6]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>The European Molecular Biology Laboratory's European Bioinformatics Institute (EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the Wellcome Genome Campus in Hinxton, UK, EMBL-EBI is one of six sites of the European Molecular Biology Laboratory (EMBL), Europe's only intergovernmental life sciences organisation. This overview summarises the status of services that EMBL-EBI data resources provide to scientific communities globally. The scale, openness, rich metadata and extensive curation of EMBL-EBI added-value databases makes them particularly well-suited as training sets for deep learning, machine learning and artificial intelligence applications, a selection of which are described here. The data resources at EMBL-EBI can catalyse such developments because they offer sustainable, high-quality data, collected in some cases over decades and made openly availability to any researcher, globally. Our aim is for EMBL-EBI data resources to keep providing the\u00a0foundations for tools and research insights that transform fields across the life sciences.<\/jats:p>","DOI":"10.1093\/nar\/gkac1098","type":"journal-article","created":{"date-parts":[[2022,12,7]],"date-time":"2022-12-07T15:50:44Z","timestamp":1670428244000},"page":"D9-D17","source":"Crossref","is-referenced-by-count":44,"title":["EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) in 2022"],"prefix":"10.1093","volume":"51","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1325-1795","authenticated-orcid":false,"given":"Matthew","family":"Thakur","sequence":"first","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6982-4660","authenticated-orcid":false,"given":"Alex","family":"Bateman","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Cath","family":"Brooksbank","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2949-3921","authenticated-orcid":false,"given":"Mallory","family":"Freeberg","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Melissa","family":"Harrison","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Matthew","family":"Hartley","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7532-6898","authenticated-orcid":false,"given":"Thomas","family":"Keane","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Gerard","family":"Kleywegt","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Andrew","family":"Leach","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0706-515X","authenticated-orcid":false,"given":"Mariia","family":"Levchenko","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Sarah","family":"Morgan","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5806-6174","authenticated-orcid":false,"given":"Ellen\u00a0M","family":"McDonagh","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"},{"name":"OpenTargets, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8878-3972","authenticated-orcid":false,"given":"Sandra","family":"Orchard","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7270-5470","authenticated-orcid":false,"given":"Irene","family":"Papatheodorou","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8439-5964","authenticated-orcid":false,"given":"Sameer","family":"Velankar","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3905-4335","authenticated-orcid":false,"given":"Juan\u00a0Antonio","family":"Vizcaino","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Rick","family":"Witham","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Barbara","family":"Zdrazil","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]},{"given":"Johanna","family":"McEntyre","sequence":"additional","affiliation":[{"name":"Data Services Teams, EMBL\u2019s European Bioinformatics Institute (EMBL-EBI) , Wellcome Genome Campus , Hinxton \u00a0CB10 1SD, UK"}]}],"member":"286","published-online":{"date-parts":[[2022,12,7]]},"reference":[{"key":"2023010804292118700_B1","doi-asserted-by":"crossref","first-page":"W276","DOI":"10.1093\/nar\/gkac240","article-title":"Search and sequence analysis tools services from EMBL-EBI in 2022","volume":"50","author":"Madeira","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B2","doi-asserted-by":"crossref","first-page":"D520","DOI":"10.1093\/nar\/gky949","article-title":"Protein data bank: the single global archive for 3D macromolecular structure data","volume":"47","author":"wwPDB consortium","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B3","doi-asserted-by":"crossref","first-page":"D480","DOI":"10.1093\/nar\/gkaa1100","article-title":"UniProt: the universal protein knowledgebase in 2021","volume":"49","author":"The UniProt Consortium","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B4","first-page":"D570","article-title":"MGnify: the microbiome analysis resource in 2020","volume":"48","author":"Mitchell","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B5","doi-asserted-by":"crossref","first-page":"D439","DOI":"10.1093\/nar\/gkab1061","article-title":"AlphaFold protein structure database: massively expanding the structural coverage of protein-sequence space with high-accuracy models","volume":"50","author":"Varadi","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B6","doi-asserted-by":"crossref","first-page":"eabm9506","DOI":"10.1126\/science.abm9506","article-title":"AI-based structure prediction empowers integrative structural analysis of human nuclear pores","volume":"376","author":"Mosalaganti","year":"2022","journal-title":"Science"},{"key":"2023010804292118700_B7","doi-asserted-by":"crossref","first-page":"D106","DOI":"10.1093\/nar\/gkab1051","article-title":"The european nucleotide archive in 2021","volume":"50","author":"Cummins","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B8","doi-asserted-by":"crossref","first-page":"D980","DOI":"10.1093\/nar\/gkab1059","article-title":"The european Genome-phenome archive in 2021","volume":"50","author":"Freeberg","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B9","doi-asserted-by":"crossref","first-page":"849","DOI":"10.1038\/s41592-018-0195-8","article-title":"A call for public archives for biological image data","volume":"15","author":"Ellenberg","year":"2018","journal-title":"Nat. Methods"},{"key":"2023010804292118700_B10","article-title":"EMPIAR: The Electron Microscopy Public Image Archive","author":"Iudin","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B11","doi-asserted-by":"crossref","first-page":"D396","DOI":"10.1093\/nar\/gkv1126","article-title":"EMDataBank unified data resource for 3DEM","volume":"44","author":"Lawson","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B12","doi-asserted-by":"crossref","first-page":"D412","DOI":"10.1093\/nar\/gkaa913","article-title":"Pfam: the protein families database in 2021","volume":"49","author":"Mistry","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B13","doi-asserted-by":"crossref","first-page":"D344","DOI":"10.1093\/nar\/gkaa977","article-title":"The interpro protein families and domains database: 20 years on","volume":"49","author":"Blum","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B14","doi-asserted-by":"crossref","first-page":"D1266","DOI":"10.1093\/nar\/gkx965","article-title":"The biostudies database\u2014one stop shop for all data supporting a life sciences study","volume":"46","author":"Sarkans","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B15","doi-asserted-by":"crossref","first-page":"D1502","DOI":"10.1093\/nar\/gkaa1062","article-title":"From arrayexpress to biostudies","volume":"49","author":"Sarkans","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B16","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkac1052","article-title":"UniProt: The Universal Protein Knowledgebase in 2023","author":"The UniProt Consortium","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B17","doi-asserted-by":"crossref","first-page":"4643","DOI":"10.1093\/bioinformatics\/btaa485","article-title":"UniRule: a unified rule resource for automatic annotation in the uniprot knowledgebase","volume":"36","author":"MacDougall","year":"2020","journal-title":"Bioinformatics"},{"key":"2023010804292118700_B18","doi-asserted-by":"crossref","first-page":"D543","DOI":"10.1093\/nar\/gkab1038","article-title":"The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences","volume":"50","author":"Perez-Riverol","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B19","article-title":"The ProteomeXchange Consortium at 10 years: 2023 update","author":"Deutsch","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B20","doi-asserted-by":"crossref","first-page":"759","DOI":"10.1016\/j.cels.2021.06.006","article-title":"Artificial intelligence for proteomics and biomarker discovery","volume":"12","author":"Mann","year":"2021","journal-title":"Cell Syst."},{"key":"2023010804292118700_B21","doi-asserted-by":"crossref","first-page":"365","DOI":"10.1038\/s41587-019-0344-3","article-title":"The functional landscape of the human phosphoproteome","volume":"38","author":"Ochoa","year":"2020","journal-title":"Nat. Biotechnol."},{"key":"2023010804292118700_B22","doi-asserted-by":"crossref","first-page":"921","DOI":"10.1038\/s41587-022-01226-0","article-title":"Identification of antimicrobial peptides from the human gut microbiome using deep learning","volume":"40","author":"Ma","year":"2022","journal-title":"Nat. Biotechnol."},{"key":"2023010804292118700_B23","doi-asserted-by":"crossref","first-page":"1332","DOI":"10.1038\/s41587-019-0280-2","article-title":"Predicting HLA class II antigen presentation through integrated deep learning","volume":"37","author":"Chen","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"2023010804292118700_B24","doi-asserted-by":"crossref","first-page":"5854","DOI":"10.1038\/s41467-021-26111-3","article-title":"A proteomics sample metadata representation for multiomics integration and big data analysis","volume":"12","author":"Dai","year":"2021","journal-title":"Nat. Commun."},{"key":"2023010804292118700_B25","doi-asserted-by":"crossref","first-page":"D930","DOI":"10.1093\/nar\/gky1075","article-title":"ChEMBL: towards direct deposition of bioassay data","volume":"47","author":"Mendez","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B26","doi-asserted-by":"crossref","first-page":"32","DOI":"10.1186\/s13321-022-00611-w","article-title":"Analysis of the benefits of imputation models over traditional QSAR models for toxicity prediction","volume":"14","author":"Walter","year":"2022","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B27","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1186\/s13321-017-0232-0","article-title":"Beyond the hype: deep neural networks outperform established methods using a ChEMBL bioactivity benchmark set","volume":"9","author":"Lenselink","year":"2017","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B28","doi-asserted-by":"crossref","first-page":"5441","DOI":"10.1039\/C8SC00148K","article-title":"Large-scale comparison of machine learning methods for drug target prediction on ChEMBL","volume":"9","author":"Mayr","year":"2018","journal-title":"Chem. Sci."},{"key":"2023010804292118700_B29","doi-asserted-by":"crossref","first-page":"1096","DOI":"10.1021\/acs.jcim.8b00839","article-title":"GuacaMol: benchmarking models for de novo molecular design","volume":"59","author":"Brown","year":"2019","journal-title":"J. Chem. Inf. Model."},{"key":"2023010804292118700_B30","doi-asserted-by":"crossref","first-page":"7210","DOI":"10.1021\/acs.jmedchem.1c00416","article-title":"Target-Based evaluation of \u2018Drug-Like\u2019 properties and ligand efficiencies","volume":"64","author":"Leeson","year":"2021","journal-title":"J. Med. Chem."},{"key":"2023010804292118700_B31","doi-asserted-by":"crossref","first-page":"4688","DOI":"10.1021\/acs.jmedchem.7b00954","article-title":"The rise and fall of a scaffold: a trend analysis of scaffolds in the medicinal chemistry literature","volume":"61","author":"Zdrazil","year":"2018","journal-title":"J. Med. Chem."},{"key":"2023010804292118700_B32","doi-asserted-by":"crossref","first-page":"300","DOI":"10.1021\/acs.jcim.5b00713","article-title":"Assessing the growth of bioactive compounds and scaffolds over time: implications for lead discovery and scaffold hopping","volume":"56","author":"Jasial","year":"2016","journal-title":"J. Chem. Inf. Model."},{"key":"2023010804292118700_B33","doi-asserted-by":"crossref","first-page":"e2000080","DOI":"10.1002\/minf.202000080","article-title":"A chemographic audit of anti-Coronavirus Structure-activity information from public databases (ChEMBL)","volume":"39","author":"Horvath","year":"2020","journal-title":"Mol Inform"},{"key":"2023010804292118700_B34","doi-asserted-by":"crossref","first-page":"1438","DOI":"10.1021\/acs.jcim.6b00192","article-title":"Chemical space mapping and structure\u2013activity analysis of the ChEMBL antiviral compound set","volume":"56","author":"Klimenko","year":"2016","journal-title":"J. Chem. Inf. Model."},{"key":"2023010804292118700_B35","doi-asserted-by":"crossref","first-page":"12066","DOI":"10.1038\/s41598-019-48000-y","article-title":"Examination of molecular space and feasible structures of bioactive components of humic substances by FTICR MS data mining in ChEMBL database","volume":"9","author":"Orlov","year":"2019","journal-title":"Sci. Rep."},{"key":"2023010804292118700_B36","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1093\/bioinformatics\/btx525","article-title":"Orthologue chemical space and its influence on target prediction","volume":"34","author":"Mervin","year":"2018","journal-title":"Bioinformatics"},{"key":"2023010804292118700_B37","doi-asserted-by":"crossref","first-page":"599","DOI":"10.1002\/minf.201200059","article-title":"Annotating human P-Glycoprotein bioassay data","volume":"31","author":"Zdrazil","year":"2012","journal-title":"Mol. Inf."},{"key":"2023010804292118700_B38","doi-asserted-by":"crossref","first-page":"e61007","DOI":"10.1371\/journal.pone.0061007","article-title":"Comparability of mixed IC50 data - a statistical analysis","volume":"8","author":"Kalliokoski","year":"2013","journal-title":"PLoS One"},{"key":"2023010804292118700_B39","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1186\/s13321-018-0325-4","article-title":"Large scale comparison of QSAR and conformal prediction methods and their applications in drug discovery","volume":"11","author":"Bosc","year":"2019","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B40","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1186\/s13321-017-0199-x","article-title":"The polypharmacology browser: a web-based multi-fingerprint target prediction tool using ChEMBL bioactivity data","volume":"9","author":"Awale","year":"2017","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B41","doi-asserted-by":"crossref","first-page":"1957","DOI":"10.1021\/ci300435j","article-title":"In silico target predictions: defining a benchmarking data set and comparison of performance of the multiclass na\u00efve bayes and parzen-rosenblatt window","volume":"53","author":"Koutsoukas","year":"2013","journal-title":"J. Chem. Inf. Model."},{"key":"2023010804292118700_B42","doi-asserted-by":"crossref","first-page":"48","DOI":"10.1186\/s13321-017-0235-x","article-title":"Molecular de-novo design through deep reinforcement learning","volume":"9","author":"Olivecrona","year":"2017","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B43","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1186\/s13321-022-00582-y","article-title":"LEADD: lamarckian evolutionary algorithm for de novo drug design","volume":"14","author":"Kerstjens","year":"2022","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B44","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1186\/s13321-020-0409-9","article-title":"SmartGraph: a network pharmacology investigation platform","volume":"12","author":"Zahor\u00e1nszky-K\u0151halmi","year":"2020","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B45","doi-asserted-by":"crossref","first-page":"91","DOI":"10.1186\/s13321-021-00569-1","article-title":"Development of a chemogenomics library for phenotypic screening","volume":"13","author":"Dafniet","year":"2021","journal-title":"J. Cheminform."},{"key":"2023010804292118700_B46","doi-asserted-by":"crossref","first-page":"1418","DOI":"10.1038\/s41592-021-01166-8","article-title":"REMBI: recommended metadata for biological Images\u2014enabling reuse of microscopy data in biology","volume":"18","author":"Sarkans","year":"2021","journal-title":"Nat. Methods"},{"key":"2023010804292118700_B47","doi-asserted-by":"crossref","first-page":"D1507","DOI":"10.1093\/nar\/gkaa994","article-title":"Europe PMC in 2020","volume":"49","author":"Ferguson","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B48","doi-asserted-by":"crossref","first-page":"D1302","DOI":"10.1093\/nar\/gkaa1027","article-title":"Open targets platform: supporting systematic drug-target identification and prioritisation","volume":"49","author":"Ochoa","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B49","doi-asserted-by":"crossref","first-page":"D1311","DOI":"10.1093\/nar\/gkaa840","article-title":"Open targets genetics: systematic identification of trait-associated genes using large-scale genetics and functional genomics","volume":"49","author":"Ghoussaini","year":"2021","journal-title":"Nucleic Acids Res."},{"key":"2023010804292118700_B50","doi-asserted-by":"crossref","first-page":"232","DOI":"10.1186\/s12859-022-04753-4","article-title":"Empowering the discovery of novel target-disease associations via machine learning approaches in the open targets platform","volume":"23","author":"Han","year":"2022","journal-title":"BMC Bioinf."},{"key":"2023010804292118700_B51","doi-asserted-by":"crossref","first-page":"1667","DOI":"10.1038\/s41467-022-29292-7","article-title":"Knowledge graph-based recommendation framework identifies drivers of resistance in EGFR mutant non-small cell lung cancer","volume":"13","author":"Gogleva","year":"2022","journal-title":"Nat. Commun."},{"key":"2023010804292118700_B52","article-title":"A knowledge graph-enhanced tensor factorisation model for discovering drug targets","volume":"1","author":"Ye","year":"2022","journal-title":"IEEE\/ACM Trans. Comput. Biol. Bioinform."},{"key":"2023010804292118700_B53","doi-asserted-by":"crossref","DOI":"10.1101\/2021.10.28.466262","article-title":"Biological insights knowledge graph: an integrated knowledge graph to support drug development","author":"Geleta","year":"2021"},{"key":"2023010804292118700_B54","doi-asserted-by":"crossref","first-page":"5304","DOI":"10.1038\/s41467-022-33026-0","article-title":"Integrating and formatting biomedical data as pre-calculated knowledge graph embeddings in the bioteque","volume":"13","author":"Fern\u00e1ndez-Torras","year":"2022","journal-title":"Nat. Commun."},{"key":"2023010804292118700_B55","doi-asserted-by":"crossref","first-page":"9852","DOI":"10.1038\/s41598-019-46293-7","article-title":"Prioritizing target-disease associations with novel safety and efficacy scoring methods","volume":"9","author":"Failli","year":"2019","journal-title":"Sci. Rep."},{"key":"2023010804292118700_B56","doi-asserted-by":"crossref","first-page":"18250","DOI":"10.1038\/s41598-020-74922-z","article-title":"Preclinical validation of therapeutic targets predicted by tensor factorization on heterogeneous graphs","volume":"10","author":"Paliwal","year":"2020","journal-title":"Sci. Rep."},{"key":"2023010804292118700_B57","doi-asserted-by":"crossref","first-page":"4288","DOI":"10.1021\/acs.jproteome.7b00370","article-title":"Proteomics standards initiative: fifteen years of progress and future work","volume":"16","author":"Deutsch","year":"2017","journal-title":"J. Proteome Res."},{"key":"2023010804292118700_B58","doi-asserted-by":"crossref","first-page":"1189","DOI":"10.1021\/acs.jproteome.1c00771","article-title":"Proteomics standards initiative's proforma 2.0: unifying the encoding of proteoforms and peptidoforms","volume":"21","author":"LeDuc","year":"2022","journal-title":"J. Proteome Res."},{"key":"2023010804292118700_B59","doi-asserted-by":"crossref","first-page":"768","DOI":"10.1038\/s41592-021-01184-6","article-title":"Universal spectrum identifier for mass spectra","volume":"18","author":"Deutsch","year":"2021","journal-title":"Nat. Methods"}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/51\/D1\/D9\/48441099\/gkac1098.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/51\/D1\/D9\/48441099\/gkac1098.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,12,2]],"date-time":"2023-12-02T16:35:29Z","timestamp":1701534929000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article\/51\/D1\/D9\/6880745"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,12,7]]},"references-count":59,"journal-issue":{"issue":"D1","published-online":{"date-parts":[[2022,12,7]]},"published-print":{"date-parts":[[2023,1,6]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkac1098","relation":{},"ISSN":["0305-1048","1362-4962"],"issn-type":[{"value":"0305-1048","type":"print"},{"value":"1362-4962","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2023,1,6]]},"published":{"date-parts":[[2022,12,7]]}}}