module Qu

Thermodynamics Parameters for calculating Tm and Gibbs free energy
References
Matched base-pair =>

[1] SantaLucia JR (1998) "A unified view of polymer, dumbbell
and oligonucleotide DNA nearest-neighbor thermodynamics", Proc Natl
Acad Sci 95=>1460-65 http=>//dx.doi.org/10.1073/pnas.95.4.1460.

Mismatched base-pair =>

[1]. Allawi, H.T. and SantaLucia, J. (1997) Thermodynamics and NMR 
of internal GT mismatches in DNA, Biochemistry, 36, 10581-10594.
[2]. Allawi, H.T. and SantaLucia, J. (1998) Nearest-neighbor 
thermodynamics of internal A center dot C mismatches in 
DNA=> Sequence dependence and pH effects, Biochemistry, 37, 9435-9444.
[3]. Allawi, H.T. and SantaLucia, J. (1998) Nearest neighbor 
thermodynamic parameters for internal G center dot A mismatches 
in DNA, Biochemistry, 37, 2170-2179.
[4]. Allawi, H.T. and Santalucia, J. (1998) Thermodynamics of 
internal C center dot T mismatches in DNA, Nucleic Acids 
Research, 26, 2694-2701.

NN model =>

[1] SantaLucia, J. (1998) A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics, Proceedings of the National Academy of Sci-ences of the United States of America, 95, 1460-1465.

[2] von Ahsen, N., Wittwer, C.T. and Schutz, E. (2001) Oligonucleotide melting tempera-tures under PCR conditions=> Nearest-neighbor corrections for Mg2+, deoxynu-cleotide triphosphate, and dimethyl sulfoxide concentrations with comparison to alternative empirical formulas, Clinical Chemistry, 47, 1956-1961.