DNA Duplex Stability  

  

Poland '74

Douglas Poland. "Recursion Relation Generation of Probability Profiles for Specific-Sequence Macromolecules with Long-Range Correlations." Biopolymers 13:1859-1871, 1974.

  

Gotoh & Tagashira '81

Osamu Gotoh and Yusaku Tagashira, "Stabilities of Nearest-Neighbor Doublets in Double-Helical DNA Determined by Fitting Calculated Melting Profiles to Observed Profiles." Biopolymers 20:1033-1042, 1981.

  

Breslauer et al. '86

Kenneth J. Breslauer, Ronald Frank, Helmut Blöcker, and Luis A. Marky. "Predicting DNA duplex stability from the base sequence." Proc. Natl. Acad. Sci. USA 83:3746-3750, June 1986.

Seems to be the classic reference in this field. Still cited by the latest publications (e.g., [Tijssen-93]).

  

McGraw et al. '90

Royal A. McGraw, Eric K. Steffe and Susan M. Baxter. "Sequence-Dependent Oligonucleotide-Target Duplex Stabilities: Rules from Empirical Studies with a Set of Twenty-Mers." BioTechniques 8(6):674-678, 1990.

  

Quartin & Wetmur '89

Robin S. Quartin and James G. Wetmur. "Effect of Ionic Strength on the Hybridization of Oligodeoxynucleotides with Reduced Charge Due to Methylphosphonate Linkages to Unmodified Oligodeoxynucleotides Containing the Complementary Sequence." Biochemistry 28:1040-1047, 1989.

Our source for base-pair doublet entropies, indirectly through reference in Tijssen '93.

  

Wetmur '91

James G. Wetmur. "DNA Probes: Applications of the Principles of Nucleic Acid Hybridization." Crit. Rev. in Biochem. and Mol. Bio. 26(3/4):227-259, 1991.

  

Tijssen '93

P. Tijssen. Laboratory Techniques in Biochemistry and Molecular Biology, Volume 24, hybridization with nucleic acid probes, part I: theory and nucleic acid preparation. Elsevier, Amsterdam & New York, 1985.

MIT call number: QD415.5.L123 v.24, 1985. Excerpt from chapter 2, pp. 19-65 (on hybridization thermodynamics and kinetics) in my files. This is a very useful reference. (It also has useful appendixes on these topics which I still need to make copies of.)