Home Page of Isabel K. Darcy

Darcy, I. K., Sumners, D. W., A Strand Passage Metric for Topoisomerase Action, in Knots '96: Proceedings of the Fifth MSJ International Research Institute of Mathematical Society of Japan, July 1996, World Scientific, ed. S. Suzuki (1997) 267 - 278.

Darcy, I. K., Sumners, D. W., Rational Tangle Distances on Knots and Links, Mathematical Proceedings of the Cambridge Philosophical Society, 128 (2000), no. 3, 497--510. (16 page postscript file) or (pdf file)

Darcy, I. K., Biological Distances on DNA Knots and Links: Applications to XER recombination Knots in Hellas '98, Vol. 2 (Delphi). J.Knot Theory Ramifications, 10 (2001), no. 2, 269--294(24 page postscript file) or (pdf file)

Darcy, I. K., Solving unoriented tangle equations involving 4-plats , J.Knot Theory Ramifications, (12 page postscript file)

(pdf file)

Darcy, I. K., Solving oriented tangle equations involving 4-plats , J.Knot Theory Ramifications, (19 page postscript file)

(pdf file)

Vetcher, A. A., Lushnikov, A. Y., Navarra-Madsen, J., Scharein, R. G., Lyubchenko, Y. L., Darcy, I. K., Levene, S. D. DNA Topology and Geometry in Flp and Cre Recombination, Journal of Molecular Biology, 2006 Apr 7;357(4):1089-104.

Darcy, I. K., Scharein, R. G., TopoICE-R: 3D visualization modeling the topology of DNA recombination, Bioinformatics. 2006 Jul 15;22(14):1790-1.

Darcy, I. K., Bhutra, A., Chang, J., Druivenga, N., McKinney, C., Medikonduri, R. K., Mills, S., Navarra Madsen, J., Ponnusamy, A., Sweet, J., Thompson, T., Coloring the Mu Transpososome, BMC Bioinformatics. 2006 Oct 5;7:435.

Darcy, I. K., Modeling protein-DNA complexes with tangles, Comput. Math. Appl. 55 (2008), no. 5, 924--937

Darcy, I. K., Scharein, R. G., Stasiak, A., TopoICE-X: 3D visualization software to analyse topological outcomes of topoisomerase reactions, Nucleic Acids Research 2008 36(11):3515-3521.

cover figure

Accepted:

Kim, S., Darcy, I.K., Topological Analysis of DNA-protein Complexes, Mathematics of DNA Structure, Function, and Interactions edited by Craig John Benham, Stephen Harvey, Wilma K. Olson, De Witt L. Sumners, and David Swigon,Springer Science + Business Media, LLC, New York, 2009.