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Welcome!
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Courses :: Papers and
Publications:: Research :: Professional Associations
Contact
Information
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Title:
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Assistant
Professor
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Office Hours:
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Tuesday
12:15-13:30, or by appointment
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E-mail:
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mariel@math.sfsu.edu
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Office Phone:
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(415) 338-2071
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Mailing Address:
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San Francisco
State University
Department of Mathematics,
Thorton Hall Room #928
1600 Holloway Ave
San Francisco, CA 94132
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Events
SIAM mini-symposium on New Trends in Mathematical Biology
Saturday January 16th, 2010; 8:00am-11:00am
Joint Mathematics Meetings
Moscone Center, San Francisco
Organizers: Javier Arsuaga and
Mariel Vazquez
Fong Symposium
SFSU math Department
April 2010
Speaker: Professor Gunnar
Carlsson
More details to come.
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Courses Spring
2010::
- Math414-01/Math714-01:
Analyzing DNA
topology with Mathematical and Computational Methods
(course website)
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Recent Publications ::
Recent papers published
and in press
- DeWoskin, D., Climent, J., Cruz-White, I., Vazquez,
M., Park, C., and
Arsuaga,
J, Applications of Computational
Homology to Prediction of Treatment Response in Breast Cancer Patients
(2010) Topology
and its Applications 157 (1): 157-164
- Scharein, R., Ishihara, K., Arsuaga, J., Diao, Y.,
Shimokawa, K., and
Vazquez, M., Bounds for minimal step
number of knots in the simple cubic lattice (2009)
J. Phys.
A :Math. Theor. 42: 475006.
- Darcy, I. , Luecke, J. and Vazquez, M., Tangle analysis of difference topology
experiments: applications to a Mu protein-DNA complex (2009) Algebraic
and Geometric Topology 9: 2247-2309.
This preprint can also be accessed from the IMA
preprint series.
PDF
- Arsuaga, J., Diao, Y., and Vazquez, M., Mathematical Methods in DNA Topology:
Applications to Chromosome Organization and Site-specific Recombination,
(2009) in Mathematics of DNA
Structure, Function and
Interactions (eds C.J. Benham, S. Harvey, W.K. Olson, D.W. Sumners
and
D. Swigon), Springer Science + Business Media, LLC, New York, pp. 7-36.
- Ardanza-Trevijano, S, Arsuaga, J, Crespo, JA,
Hernandez, LJ, Rivas,
MT, Roca, J. and Vazquez, M, Invariantes Topologicos en el ADN,
los
Fullerenos y la Teoria de Eleccion Social (2007)
La Gaceta de la RSME 10(3):611-632
- Grainge, I, Bregu, M, Vazquez, M, Sivanathan, V, Ip,
SC, and Sherratt, DJ, (2007) Unlinking chromosomes catenated in vivo by
site-specific recombination
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 154(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)
- 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 Funding:
My research is funded by the National
Institutes of Health and by the National Science Foundation:
NSF Mathematical Biology (2009-2013)
Topological characterization of DNA organization in bacteriophages
co-PIs Javier Arsuaga (Leading PI; SFSU), Yuanan DIao (co-PI, UNC
Charlotte)
NIH MBRS SCORTopoE program (2007-2010)
Computer Analysis of DNA Unknotting by Topoisomerase II
NIH NCMHD RIMI (2008-2013)
Health Disparities Research at San Francisco State University
Multiscale analysis of CGH arrays of breast cancer patients using
computational algebraic topology
Co-PI: Javier Arsuaga (SFSU)
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
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American Mathematical Society (AMS)
Mathematical Association of America (MAA)
International Society for Computational Biology (ISCB)
Association for Women in Mathematics (AWM)
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| last updated:
August 2008 |
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