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Nucleic Acids Research, 2003, Vol. 31, No. 13 3819-3821
© 2003 Oxford University Press

WEB-THERMODYN: sequence analysis software for profiling DNA helical stability

Yanlin Huang and David Kowalski*

Cancer Genetics Department, Roswell Park Cancer Institute, Buffalo, NY 14263, USA

*To whom correspondence should be addressed. Tel: +1 7168454462; Fax: +1 7168455906; Email: david.kowalski{at}roswellpark.org
Present address: Yanlin Huang, Epic Systems, Madison, WI, USA

WEB-THERMODYN analyzes DNA sequences and computes the DNA helical stability, i.e. the free energy required to unwind and separate the strands of the double helix. A helical stability profile across a selected DNA region or the entire sequence is generated by sliding-window analysis. WEB-THERMODYN can predict sites of low helical stability present at regulatory regions for transcription and replication and can be used to test the influence of mutations. The program can be accessed at: http://wings.buffalo.edu/gsa/dna/dk/WEBTHERMODYN/.


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