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Open a new epoch of arsenic trioxide investigation: ATOdb
Yanan Jiang1, Jianing Li2, Yujie Liu2
1College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China; Department of Pharmacology (State-Province Key Laboratories of Biomedicine-Pharmaceutics of China, Key Laboratory of Cardiovascular Research, Ministry of Education), College of Pharmacy, Harbin Medical University, Harbin 150081, China; Translational Medicine Research and Cooperation Center of Northern China, Heilongjiang Academy of Medical Sciences, Harbin 150081, China.
Abstract:
Arsenic trioxide (ATO) is a great discovery in the treatment of acute promyelocytic leukemia (APL), which has been used in an increasing number of malignant diseases. Systematic integrative analysis will help to precisely understand the mechanism of ATO and find new combined drugs. Therefore, we developed a one-stop comprehensive database of ATO named ATOdb by manually compiling a wealth of experimentally supported ATO-related data from 3479 articles, and integrated analysis tools. The current version of ATOdb contains 8373 associations among 2300 ATO targets, 80 conditions and 262 combined drugs. Each entry in ATOdb contains detailed information on ATO targets, therapeutic/side effects, systems, cell names, cell types, regulations, detection methods, brief descriptions, references, etc. Furthermore, ATOdb also provides data visualization and analysis results such as the drug similarities, protein-protein interactions, and miRNA-mRNA relationships. An easy-to-use web interface was deployed in ATOdb for users to easily browse, search and download the data. In conclusion, ATOdb will serve as a valuable resource for in-depth study of the mechanism of ATO, discovery of new drug combination strategies, promotion of rational drug use and individualized treatments. ATOdb is freely available at http://bio-bigdata.hrbmu.edu.cn/ATOdb/index.jsp.
Insights
Arsenic trioxide (ATO) database (ATOdb) compiles extensive data on ATO
Area of Science:
- Pharmacology and Toxicology
- Bioinformatics and Computational Biology
- Oncology
Background:
- Arsenic trioxide (ATO) is a crucial treatment for acute promyelocytic leukemia (APL) and other cancers.
- Understanding ATO's mechanisms and identifying synergistic drug combinations are vital for advancing cancer therapy.
Purpose of the Study:
- To develop a comprehensive, integrated database (ATOdb) for arsenic trioxide (ATO).
- To facilitate in-depth analysis of ATO's mechanisms and discover novel therapeutic strategies.
Main Methods:
- Manual compilation of ATO-related data from 3479 research articles.
- Integration of data on ATO targets, conditions, and drug combinations.
- Development of data visualization and analysis tools (e.g., PPI, miRNA-mRNA interactions).
Main Results:
- ATOdb contains 8373 associations among 2300 ATO targets, 80 conditions, and 262 combined drugs.
- Detailed information on therapeutic effects, side effects, and molecular interactions is included.
- Includes data visualization and analysis tools for drug similarity, PPI, and miRNA-mRNA relationships.
Conclusions:
- ATOdb serves as a valuable resource for studying ATO mechanisms and identifying new drug combinations.
- The database supports rational drug use and personalized cancer treatments.
- ATOdb is freely accessible online for researchers worldwide.
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