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NTDB: Thermodynamic Database for Nucleic Acids, Version 2.0
Wing Lok Abe Kurtz Chiu1, Chun Ngai Sze, Nap Tak Ma
1Department of Chemistry, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong SAR, China.
Nucleic Acids Research
|January 10, 2003
Summary
The Nucleic Acid Thermodynamic Database (NTDB 2.0) now contains over 4600 entries, a 250% increase, offering comprehensive thermodynamic data for nucleic acids and nucleosides.
Area of Science:
- Biochemistry
- Molecular Biology
- Bioinformatics
Background:
- Accurate thermodynamic data is crucial for understanding nucleic acid structure and function.
- Previous versions of the NTDB provided valuable, but limited, thermodynamic information.
- A comprehensive and updated resource is needed for researchers in nucleic acid science.
Purpose of the Study:
- To release an expanded and updated version of the Nucleic Acid Thermodynamic Database (NTDB 2.0).
- To provide a centralized repository for thermodynamic parameters of nucleic acids.
- To include data on nucleosides and modified nucleobases.
Main Methods:
- Compilation of thermodynamic data (enthalpy, entropy, Gibbs free energy, melting temperature) from literature.
- Inclusion of experimental models, methods, and buffer conditions.
- Development of a new 'Nucleoside' section for modified bases and nucleosides.
Main Results:
- NTDB 2.0 features over 4600 entries, a 250% increase from NTDB 1.0.
- The database includes detailed thermodynamic parameters, sequence types, and experimental conditions.
- New data on nucleosides and modified nucleobases are now available.
Conclusions:
- NTDB 2.0 is a significantly expanded and valuable resource for nucleic acid thermodynamics.
- The database facilitates research in molecular biology and bioinformatics.
- NTDB 2.0 is freely accessible online for the scientific community.