DINAMelt web server for nucleic acid melting prediction
What you can do:
Predict hybridization, folding and melting profiles for two strands of DNA or RNA.
Highlights:
- The DINAMelt web server simulates the melting of one or two single-stranded nucleic acids in solution.
- The goal is to predict not just a melting temperature for a hybridized pair of nucleic acids, but entire equilibrium melting profiles as a function of temperature.
- The two molecules are not required to be complementary, nor must the two strand concentrations be equal. Competition among different molecular species is automatically taken into account.
- Calculations consider not only the heterodimer, but also the two possible homodimers, as well as the folding of each single-stranded molecule.
- For each of these five molecular species, free energies are computed by summing Boltzmann factors over every possible hybridized or folded state.
- For temperatures within a user-specified range, calculations predict species mole fractions together with the free energy, enthalpy, entropy and heat capacity of the ensemble.
- Ultraviolet (UV) absorbance at 260 nm is simulated using published extinction coefficients and computed base pair probabilities.
- All results are available as text files and plots are provided for species concentrations, heat capacity and UV absorbance versus temperature.
Keywords:
- nucleic acid hybridization prediction
- nucleic acid denaturation
- DNA melting profile
- RNA melting profile
- DNA hybridization prediction tool
- RNA hybridization prediction tool
Literature & Tutorials:
This record last updated: 12-19-2005