Resource list: DNA melting and PCR

DNA melting thermodynamics

• Ryan T. Koehler and Nicolas Peyret Thermodynamic properties of DNA sequences: characteristic values for the human genome Bioinformatics 2005 21(16):3333-3339; doi:10.1093/bioinformatics/bti530

Use of fluorescent reporters to measure DNA melting curves

• Ririe, et al. Product Differentiation by Analysis of DNA Melting Curves during the Polymerase Chain Reaction. Analytical Biochemistry 245, 154–160 (1997)

• Michael T. Bjorndal and D. Kuchnir Fygenson. DNA Melting in the Presence of Fluorescent Intercalating Oxazole Yellow Dyes Measured with a Gel-Based Assay. Biopolymers, Vol. 65, 40–44 (2002)

• Applied Biosystems discussion of real-time PCR with SYBR Green I vs. TaqMan assays

• Neuzil, et. al. Non-contact fluorescent bleaching-independent method for temperature measurement in microfluidic systems based on DNA melting curves. Lab Chip, 2010, 10, 2818 - 2821, DOI: 10.1039/c005243d

Applications of DNA melting curves

• Worm, et. al. In-Tube DNA Methylation Profiling by Fluorescence Melting Curve Analysis Clinical Chemistry 47:7 1183–1189 (2001)

• Marziliano, et. al. Melting Temperature Assay for a UGT1A Gene Variant in Gilbert Syndrome. Clinical Chemistry. 2000;46:423-425.) (Also see: Ahsen, et. al. Limitations of Genotyping Based on Amplicon Melting Temperature. Clinical Chemistry. 2001;47:1331-1332.

PCR

• Saiki, et. al. Primer-Directed Enzymatic Amplification of DNA with a Thermostable DNA Polymerase. Science 29 January 1988: Vol. 239. no. 4839, pp. 487 - 491 DOI: 10.1126/science.2448875

• Kubista, et. al. The real-time polymerase chain reaction. Molecular Aspects of Medicine 27 (2006) 95–125.

• PCR animation

• Animation of copying process from PBS series DNA: The Secret of Life.

Quantitative methods

• C A Heid, J Stevens, K J Livak, et al. Real time quantitative PCR. Genome Res. 1996 6: 986-994.