Open-Access Adverse Drug Reaction Databases: Applicability for Safety Assessment of the Developed Drugs (Review)
https://doi.org/10.30895/2312-7821-2025-535
Abstract
INTRODUCTION. Evaluating safety data on already registered drugs is an important stage in medicine development. Databases (DBs) of adverse drug reactions (ADRs) have been created and maintained by regulatory authorities and individual research groups. The data aggregated in such DBs can help create reference and training datasets for experimental and in silico studies. A preliminary assessment and systematisation of information from these databases can facilitate the selection of DBs relevant to a specific study.
AIM. This study aimed to assess applicability of public ADR databases for safety studies of medicinal products.
DISCUSSION. Eleven public DBs that provide information on ADRs of approved drugs were studied: FAERS, DAEN, MedEffect Canada, EudraVigilance, VigiBase, SIDER, MetaADEDB, ADReCS-Target, T-ARDIS, OnSIDES, and WWAD. The differences between these databases are primarily due to the variety of sources they use: spontaneous reports (FAERS, DAEN, MEDEFFECT, EudraVigilance, VigiBase), patient information leaflets and other official documents (SIDER, OnSIDES, WWAD), scientific publications (ADReCS-Target), and other open-access web resources (MetaADEDB, T-ARDIS). All the reviewed databases can be used for informational support and analysis of drug safety profiles. SIDER, MetaADEDB, ADReCS-Target, OnSIDES, and WWAD are useful in preclinical studies, particularly while developing training sets for in silico methods. Hypotheses for possible ADR mechanisms and search for new drug repurposing vectors can be arranged using ADReCS-Target, WWAD, and T-ARDIS, since these DBs provide additional data on active pharmaceutical substances or target molecules. Using computer-aided methods without thorough hands-on search in the DBs such as ADReCS-Target, T-ARDIS, OnSIDES, and MetaADEDB, limits their applicability in tasks requiring accurately analysed information.
CONCLUSIONS. The DBs reviewed can serve as a valuable tool for addressing a wide range of biomedical issues. To select a DB relevant for a specific study, it is important to consider the underlying principles, since varying sources and annotation methods can affect the reliability of results.
Keywords
About the Authors
P. I. SavosinaRussian Federation
Polina I. Savosina
10/8, Pogodinskaya St., Moscow 119121
V. V. Poroikov
Russian Federation
Vladimir V. Poroikov, Academician of the Russian Academy of Sciences, Professor, Dr. Sci. (Biol.), Cand. Sci. (Phys.-Math.)
10/8, Pogodinskaya St., Moscow 119121
D. S. Druzhilovskiy
Russian Federation
Dmitry S. Druzhilovskiy, Cand. Sci. (Biol.)
10/8, Pogodinskaya St., Moscow 119121
References
1. Zhai J, Yan H, Zhang J, et al. A comprehensive analysis of adverse drug reactions in 2020–2023: Case studies. Front Pharmacol. 2025;16:1628347. https://doi.org/10.3389/fphar.2025.1628347
2. Bennett CL, Hoque S, Olivieri N, et al. Consequences to patients, clinicians, and manufacturers when very serious adverse drug reactions are identified (1997–2019): A qualitative analysis from the Southern Network on Adverse Reactions (SONAR). EClinicalMedicine. 2020;31:100693. https://doi.org/10.1016/j.eclinm.2020.100693
3. Tan Y, Hu Y, Liu X, et al. Improving drug safety: From adverse drug reaction knowledge discovery to clinical implementation. Methods. 2016;110:14–25. https://doi.org/10.1016/j.ymeth.2016.07.023
4. Learn DB. Photosafety assessment of pharmaceuticals. In: Hock FJ, Pugsley MK, ed. Drug discovery and evaluation: Safety and pharmacokinetic assays. Cham, Switzerland: Springer International Publishing; 2024. P. 2393–409.
5. Schreier T, Tropmann-Frick M, Böhm, R. Integration of FAERS, Drug-Bank and SIDER data for machine learning-based detection of adverse drug reactions. Datenbank Spektrum. 2024;24:233–42. https://doi.org/10.1007/s13222-024-00486-1
6. Masoudi-Sobhanzadeh Y, Omidi Y, Amanlou M, Masoudi-Nejad A. Drug databases and their contributions to drug repurposing. Genomics. 2020;112(2):1087–95. https://doi.org/10.1016/j.ygeno.2019.06.021
7. Zhu Y, Elemento O, Pathak J, Wang F. Drug knowledge bases and their applications in biomedical informatics research. Brief Bioinform. 2019;20(4):1308–21. https://doi.org/10.1093/bib/bbx169
8. Poroikov VV, Dmitriev AV, Druzhilovskiy DS, et al. In silico estimation of the safety of pharmacologically active substances using machine learning methods: A review. Safety and Risk of Pharmacotherapy. 2023;11(4):372–89 (In Russ.). https://doi.org/10.30895/2312-7821-2023-11-4-372-389
9. Kazakov AS, Darmostukova MA, Bukatina TM, et al. Comparative analysis of international databases of adverse drug reactions. Safety and Risk of Pharmacotherapy. 2020;8(3):134–40 (In Russ.). https://doi.org/10.30895/2312-7821-2020-8-3-134-140
10. Zhuravleva EO, Velts NYu, Kutekhova GV, et al. Signal as a tool of the pharmacovigilance. Safety and Risk of Pharmacotherapy. 2018;6(2):61–7 (In Russ.). https://doi.org/10.30895/2312-7821-2018-6-2-61-67
11. Luo J, Chen S, Zhang M, et al. Pharmacovigilance and signal detection of adverse drug events associated with proteasome inhibitors in multiple myeloma: A real-world analysis using the FAERS database. Hematology. 2025;30(1):2534758. https://doi.org/10.1080/16078454.2025.2534758
12. Qi F, Tian L, Diao H, et al. Adverse events associated with four atypical antipsychotics used as augmentation treatment for major depressive disorder: A pharmacovigilance study based on the FAERS database. J Affect Disord. 2025;388:119435. https://doi.org/10.1016/j.jad.2025.119435
13. Luo M, Liu T, Ye X, et al. Phosphodiesterase-5 inhibitors and hearing impairment: A disproportionality analysis using the US food and drug administration adverse event reporting system. Expert Opin Drug Saf. 2025;24(9):1103–11. https://doi.org/10.1080/14740338.2024.2386374
14. Bampali K, Koniuszewski F, Vogel FD, et al. GABAA receptor-mediated seizure liabilities: A mixed-methods screening approach. Cell Biol Toxicol. 2023;39(6):2793–819. https://doi.org/10.1007/s10565-023-09803-y
15. Xu D, Ham AG, Tivis RD, et al. MSBIS: A multi-step biomedical informatics screening approach for identifying medications that mitigate the risks of metoclopramide-induced tardive dyskinesia. EBioMedicine. 2017;26:132–7. https://doi.org/10.1016/j.ebiom.2017.11.015
16. Toriumi S, Shimokawa K, Yamamoto M, Uesawa Y. Development of a medication-related osteonecrosis of the jaw prediction model using the FDA adverse event reporting system database and machine learning. Pharmaceuticals (Basel). 2025;18(3):423. https://doi.org/10.3390/ph18030423
17. Chen YH, Shih YT, Chien CS, Tsai CS. Predicting adverse drug effects: A heterogeneous graph convolution network with a multi-layer perceptron approach. PLoS One. 2022;17(12):e0266435. https://doi.org/10.1371/journal.pone.0266435
18. Kuhn M, Letunic I, Jensen LJ, Bork P. The SIDER database of drugs and side effects. Nucleic Acids Res. 2016;44(D1):D1075–9. https://doi.org/10.1093/nar/gkv1075
19. Kuhn M, Campillos M, Letunic I, Jensen LJ, Bork P. A side effect resource to capture phenotypic effects of drugs. Mol Syst Biol. 2010;6:343. https://doi.org/10.1038/msb.2009.98
20. Brown EG, Wood L, Wood S. The medical dictionary for regulatory activities (MedDRA). Drug Saf. 1999;20(2):109–17. https://doi.org/10.2165/00002018-199920020-00002
21. Jamu IM, Okamoto H. Recent advances in understanding adverse effects associated with drugs targeting the serotonin receptor, 5-HT GPCR. Frontiers in Global Women’s Health. 2022;3:1012463. https://doi.org/10.3389/fgwh.2022.1012463
22. Kaito S, Sato K, Sasaki T, et al. Association between drug-induced heart failure and CYP1A1, CYP1B1, and CYP3A4 inhibition: Utility of cytochrome P450 inhibition assay for evaluating cardiotoxicity of drug candidates. Toxicol In Vitro. 2025;107:106075. https://doi.org/10.1016/j.tiv.2025.106075
23. Ivanov SM, Lagunin AA, Rudik AV, et al. ADVERPred — Web service for prediction of adverse effects of drugs. J Chem Inf Model. 2018;58(1):8–11. https://doi.org/10.1021/acs.jcim.7b00568
24. Tanaka Y, Chen HY, Belloni P, et al. OnSIDES database: Extracting adverse drug events from drug labels using natural language processing models. Med. 2025;6(7):100642. https://doi.org/10.1016/j.medj.2025.100642
25. Tatonetti NP, Ye PP, Daneshjou R, Altman RB. Data-driven prediction of drug effects and interactions. Sci Transl Med. 2012;4(125):125ra31. https://doi.org/10.1126/scitranslmed.3003377
26. Yu Z, Wu Z, Li W, et al. MetaADEDB 2.0: A comprehensive database on adverse drug events. Bioinformatics. 2021;37(15):2221–2. https://doi.org/10.1093/bioinformatics/btaa973
27. Galletti C, Bota PM, Oliva B, Fernandez-Fuentes N. Mining drug-target and drug-adverse drug reaction databases to identify target-adverse drug reaction relationships. Database (Oxford). 2021;2021:baab068. https://doi.org/10.1093/database/baab068
28. Cheng F, Li W, Wang X, et al. Adverse drug events: Database construction and in silico prediction. J Chem Inf Model. 2013;53(4):744–52. https://doi.org/10.1021/ci4000079
29. Yu Z, Wu Z, Li W, et al. ADENet: A novel network-based inference method for prediction of drug adverse events. Brief Bioinform. 2022;23(2):bbab580. https://doi.org/10.1093/bib/bbab580
30. Cheng F, Li W, Wu Z, et al. Prediction of polypharmacological profiles of drugs by the integration of chemical, side effect, and therapeutic space. J Chem Inf Model. 2013;53(4):753–62. https://doi.org/10.1021/ci400010x
31. Huang LH, He QS, Liu K, et al. ADReCS-Target: Target profiles for aiding drug safety research and application. Nucleic Acids Res. 2018;46(D1):D911–7. https://doi.org/10.1093/nar/gkx899
32. Ji ZL, Han LY, Yap CW, et al. Drug Adverse Reaction Target Database (DART): Proteins related to adverse drug reactions. Drug Saf. 2003;26(10):685–90. https://doi.org/10.2165/00002018-200326100-00002
33. Zhang JX, Huang WJ, Zeng JH, et al. DITOP: Drug-induced toxicity related protein database. Bioinformatics. 2007;23(13):1710–2. https://doi.org/10.1093/bioinformatics/btm139
34. Cai MC, Xu Q, Pan YJ, et al. ADReCS: An ontology database for aiding standardization and hierarchical classification of adverse drug reaction terms. Nucleic Acids Res. 2015;43(Database issue):D907–13. https://doi.org/10.1093/nar/gku1066
35. Xiang YP, Liu K, Cheng XY, et al. Rapid assessment of adverse drug reactions by statistical solution of Gene Association Network. IEEE/ ACM Trans Comput Biol Bioinform. 2015;12(4):844–50. https://doi.org/10.1109/TCBB.2014.2338292
36. Liu K, Ding RF, Xu H, et al. Broad-spectrum profiling of drug safety via learning complex network. Clin Pharmacol Ther. 2020;107(6):1373–82. https://doi.org/10.1002/cpt.1750
37. Li S, Zhang L, Wang L, et al. BiMPADR: A deep learning framework for predicting adverse drug reactions in new drugs. Molecules. 2024;29(8):1784. https://doi.org/10.3390/molecules29081784
38. Kuhn M, Al Banchaabouchi M, Campillos M, et al. Systematic identification of proteins that elicit drug side effects. Mol Syst Biol. 2013;9:663. https://doi.org/10.1038/msb.2013.10
39. Galletti C, Aguirre-Plans J, Oliva B, Fernandez-Fuentes N. Prediction of adverse drug reaction linked to protein targets using network-based information and machine learning. Front Bioinform. 2022;2:906644. https://doi.org/10.3389/fbinf.2022.906644
40. Savosina P, Druzhilovskiy D, Filimonov D, Poroikov V. WWAD: the most comprehensive small molecule World Wide Approved Drug database of therapeutics. Front Pharmacol. 2024;15:1473279. https://doi.org/10.3389/fphar.2024.1473279
41. Savosina P, Druzhilovskiy D, Filimonov D, Poroikov V. Bigdata of National Medicine Registers. Biomedical Chemistry: Research and Methods. 2024;7(3):e00230 (In Russ.). https://doi.org/10.18097/BMCRM00230
42. Suchonwanit P, Thammarucha S, Leerunyakul K. Minoxidil and its use in hair disorders: A review. Drug Des Devel Ther. 2019;13:2777–86. https://doi.org/10.2147/DDDT.S214907
43. Leaman R, Islamaj R, Adams V, et al. Chemical identification and indexing in full-text articles: An overview of the NLM-Chem track at BioCreative VII. Database (Oxford). 2023;baad005. https://doi.org/10.1093/database/baad005
Supplementary files
Review
For citations:
Savosina P.I., Poroikov V.V., Druzhilovskiy D.S. Open-Access Adverse Drug Reaction Databases: Applicability for Safety Assessment of the Developed Drugs (Review). Safety and Risk of Pharmacotherapy. (In Russ.) https://doi.org/10.30895/2312-7821-2025-535































