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Mariel Vazquez

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Math Department

College of Science and Engineering

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Contact Information

Title:

Assistant Professor

Office Hours:

Thursdays 3:30-4:30PM

E-mail:

mariel@math.sfsu.edu

Office Phone:

(415) 338-2071

Mailing Address:

San Francisco State University
Department of Mathematics,
Thorton Hall Room #928
1600 Holloway Ave
San Francisco, CA 94132
  

Courses Spring 08::

  • Math 414-01/714-01, Analyzing DNA Topology with Math/Computational methods (Math 414-01/714-01), Lectures TTh 2:10-3:25 in room TH211. This course will be partially co-taught by Professor J. Arsuaga, although I am the only instructor of record.

Recent Publications ::

     Preprint

Darcy, I. , Luecke, J. and Vazquez, M., Unlinking chromosome catenaned in vivo by site-specific recombination (submitted October 2007). This preprint can also be accessed from the IMA preprint series.


     Published papers
  • Grainge, I, Bregu, M, Vazquez, M, Sivanathan, V, Ip, SC, and Sherratt, DJ, Unlinking chromosomes catenated in vivo by site-specific recombination (2007) EMBO J 26(19):4228-4238

  • Hua, X, Raghavan, B, Nguyen, D,  Arsuaga, J, and Vazquez, M (2007) Random State Transitions of Knots: a first step towards modeling unknotting by type II topoisomerases. Topology and its applications 157(7):1381-1397

  • Zheng, W, Galloy, C, Hallet, B and Vazquez, M, The tangle model for site-specific recombination: a computer interface and the TnpI-IRS recombination system (2007) Proceedings of International Workshop on Knot Theory for Specific Objects, Ed. A. Kawauchi, OCAMI studies 1(2): 251-271(PDF)

  • Blackstone, T, McGuirk, P, Liang, C, Roca, J, Arsuaga, J, Vazquez, M., The role of writhe in DNA condensation (2007) Proceedings of the International Workshop on Knot Theory for Scientific Objects, Ed. A. Kawauchi, OCAMI studies 1(2): 239-250.(PDF)

  • S. Ardanza-Trevijano, J. Arsuaga, J.A. Crespo, J.I. Extremiana, L.J. Hernandez, M. Rivas, J. Roca and M. Vazquez, La topologia como herramienta en otros campos (in press) La Gaceta de la Real Sociedad Matematica Espanola. (PDF)

  • J. Arsuaga, M. Vazquez, P. McGuirck, Trigueros, S., D.W. Sumners, J. Roca DNA knots reveal a chiral organization of DNA in phage capsids; Proc. Natl Acad Sci U.S.A (2005) 102(26):9165-9. (PDF)

  • Vives, S. Bradford, L., Vazquez, M., Brenner, D.J., Sachs, R.K., Hlatky, L, Cornforth, M. and Arsuaga, J.  SCHIP: Statistics of Chromosome Interphase Positioning Based on Interchange Data, Bioinformatics. (2005) 21(14):3181-2 (PDF)

  • M. Vazquez, S.D. Colloms, D.W. Sumners, Tangle analysis of Xer recombination reveals only three solutions, all consistent with a single 3-dimensional topological pathway; J. Mol Biol (2005) 346: 493-504 (PDF)

  • Arsuaga, J., Greulich-Bode, K., Vazquez, M., Brukner, M.,Hahnfeldt,P., Brenner, D.J., Sachs, R. and Hlatky, L. Chromosome positioning through radiogenic aberrations, Int. J. Radiat. Biol. (2004) 80(7):507-15 (PDF)

  • D. Levy, M. Vazquez, B. Loucas, M. Cornforth,  R.K. Sachs, J. Arsuaga, Comparing DNA damage processing pathways by computer analysis of chromosome painting data, J. Comput. Biol. (2004) 11(4): 626-41 (PDF)

  • M. Vazquez, D.W. Sumners, Tangle Analysis of Gin recombination, Math. Proc. Camb. Phil. Soc. (2004) 136:565-582 (PDF)


    Complete list of Publications

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Research Projects/Interests ::

 I am interested in the application of topology and geometry to understand biological processes.

Software ::

TangleSolve: java applet for the mathematical analysis of site-specific recombination

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Professional Associations ::

American Mathematical Society  (AMS)

Mathematical Association of America (MAA)

International Society for Computational Biology (ISCB)

Association for Women in Mathematics (AWM)

 

 
last updated: October 2007
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