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Picture Lydia Tapia
Computing Innovation Post Doctoral Fellow
Institute for Computational Engineering and Sciences (ICES)
The University of Texas at Austin

mailing address:
Institute for Computational Engineering and Sciences url: http://parasol.tamu.edu/~ltapia/
1 University Station C0200 email:
The University of Texas at Austin tel: (979) 458-1086
Austin, TX 78712 USA fax: (979) 458-0718


I am a Computing Innovation Post Doctoral Fellow in the Institute for Computational Engineering and Sciences (ICES) at the University of Texas at Austin. At ICES I am working with Prof. Ron Elber. I received my PhD in 2009 from Texas A&M University after working with Prof. Nancy Amato. At A&M I participated as a fellow in the Molecular Biophysics Training and GAANN programs and was awarded a Sloan Scholarship and a P.E.O. Scholars Award. In 1998, I received a B.S. in Computer Science, with academic and research honors, from Tulane University. Currently my main area of research is intelligent motion planning (with application to robots and molecules).

Prior to attending graduate school, I worked as a member of technical research staff as part of the Virtual Reality Laboratory at Sandia National Laboratories. At Sandia I contributed to many large-scale virtual reality applications including a training simulation for first responders to a chemical warfare attack.


Research

My research interests include motion planning, robotics, computational biology, machine learning, artificial intelligence, and virtual reality


Projects

Computational Biology:
Protein Folding
RNA Folding
Motion Planning:
Feature Sensitive Framework for Motion Planning


Publications

Shawna Thomas, Lydia Tapia, Chinwe Ekenna, Hsin-Yi (Cindy) Yeh, Nancy M. Amato, "Rigidity Analysis for Protein Motion and Folding Core Identification," In Proc. of 2013 AAAI Wkshp. on Art. Int. and Robot. Meth. in Comp. Bio., Bellevue, WA, Jul 2013.
Proceedings(pdf, abstract)

Troy McMahon, Sam Ade Jacobs, Bryan Boyd, Lydia Tapia, Nancy M. Amato, "Local Randomization in Neighbor Selection Improves PRM Roadmap Quality," In Proc. IEEE Int. Conf. Intel. Rob. Syst. (IROS), Vilamoura, Algarve [Portugal], Oct 2012.
Proceedings(ps, pdf, abstract)

Troy McMahon, Sam Ade Jacobs, Bryan Boyd, Lydia Tapia, Nancy M. Amato, "Evaluation of the K-closest Neighbor Selection Strategy for PRM Construction," Technical Report, TR12-001, Department of Computer Science and Engineering, Texas A&M University, Jan 2012.
Technical Report(pdf, abstract)

Jory Denny, Anshul Agrawal, Evan Greco, Lydia Tapia, Nancy M. Amato, "Region Identification Methods for Efficient and Automated Motion Planning," Technical Report, TR10-002, Parasol Laboratory, Department of Computer Science, Texas A&M University, College Station, Texas, U.S.A., Sep 2010.
Technical Report(ps, pdf, abstract)

Lydia Tapia, Shawna Thomas, Nancy M. Amato, "A Motion Planning Approach to Studying Molecular Motions," Communications in Information and Systems, 10(1):53-68, 2010.
Journal(pdf, abstract)

Lydia Tapia, "Intelligent Motion Planning and Analysis with Probabilistic Roadmap Methods for the Study of Complex and High-Dimensional Motions," Ph.D. Thesis, Parasol Laboratory, Department of Computer Science, Texas A&M University, College Station, Texas, Dec 2009.
Ph.D. Thesis(pdf, abstract)

Lydia Tapia, Shawna Thomas, Bryan Boyd, Nancy M. Amato, "An Unsupervised Adaptive Strategy for Constructing Probabilistic Roadmaps," In Proc. IEEE Int. Conf. Robot. Autom. (ICRA), pp. 4037-4044, Kobe, Japan, May 2009.
Proceedings(pdf, abstract)

Lydia Tapia, Shawna Thomas, Nancy M. Amato, "Using Dimensionality Reduction to Better Capture RNA and Protein Folding Motions," Technical Report, TR08-005, Parasol Laboratory, Department of Computer Science, Texas A&M University, College Station, Texas, U.S.A., Oct 2008.
Technical Report(ps, pdf, abstract)

Xinyu Tang, Shawna Thomas, Lydia Tapia, David P. Giedroc, Nancy M. Amato, "Simulating RNA Folding Kinetics on Approximated Energy Landscapes," Journal of Molecular Biology, 3811(4):1055-1067, Sep 2008.
Journal(pdf, abstract)

Lydia Tapia, Xinyu Tang, Shawna Thomas, Nancy M. Amato, "Kinetics Analysis Methods For Approximate Folding Landscapes," In Int. Conf. on Int. Sys. for Mol. Bio. (ISMB)/European Conf. on Comp. Bio.(ECCB), Vienna, Austria, Jul 2007. Also, Bioinformatics, 23(13):i539-i548, Jul 2007.
Journal(pdf, abstract)

Shawna Thomas, Xinyu Tang, Lydia Tapia, Nancy M. Amato, "Simulating Protein Motions with Rigidity Analysis," Journal of Computational Biology, 14(6):839-855, Jul 2007. Also, In Proc. Int. Conf. Comput. Molecular Biology (RECOMB), pp. 394-409, Apr 2006.
Journal(ps, pdf, abstract) Proceedings(ps, pdf, abstract)

Xinyu Tang, Shawna Thomas, Lydia Tapia, Nancy M. Amato, "Tools for Simulating and Analyzing RNA Folding Kinetics," In Proc. Int. Conf. Comput. Molecular Biology (RECOMB), pp. 268-282, San Francisco, CA, Apr 2007.
Proceedings(ps, pdf, abstract)

Marco A. Morales A., Lydia Tapia, Roger Pearce, Samuel Rodriguez, Nancy M. Amato, "C-Space Subdivision and Integration in Feature-Sensitive Motion Planning," In Proc. IEEE Int. Conf. Robot. Autom. (ICRA), pp. 3114-3119, Barcelona, Spain, May 2005. Also, Technical Report, TR04-004, Parasol Laboratory, Department of Computer Science, Texas A&M University, College Station, Texas, U.S.A., Sep 2004.
Proceedings(ps, pdf, abstract) Technical Report(ps, pdf, abstract)

Marco Morales, Lydia Tapia, Roger Pearce, Samuel Rodriguez, Nancy M. Amato, "A Machine Learning Approach for Feature-Sensitive Motion Planning," In Proc. Int. Wkshp. on Alg. Found. of Rob. (WAFR), pp. 361-376, Utrecht/Zeist, The Netherlands, Jul 2004. Also, Technical Report, TR04-001, Parasol Laboratory, Department of Computer Science, Texas A&M University, College Station, Texas, U.S.A., Feb 2004.
Proceedings(ps, pdf, abstract) Technical Report(ps, pdf, abstract)

Sharon Stansfield, Dan Shawver, Annette Sobel, Monica Prasad, Lydia Tapia, "Design and Implementation of a Virtual Reality System and Its Application to Training Medical First Responders", Presence Teleoperators and Virtual Environments, 9(6):524-556,2000. (ps, pdf)


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