GENETHA ANNE GRAY

9240 Fruited Plain Way

Elk Grove, CA 95624

Phone: (916)226-6747

E-mail: genethagray@gmail.com

[EDUCATION]{.underline}

Rice University, Houston, TX

Ph.D., Computational and Applied Mathematics (CAAM), May 2002.

-   Thesis: "A Variational Study of the Electrical Impedance Tomography
    Problem"

-   Advisors: Dr. Liliana Borcea and Dr. Yin Zhang

-   Fellow of the Keck Center for Computational Biology

M.A., Computational and Applied Mathematics, May 2001.

California State University, Sacramento

M.A., Mathematics, May 1997.

University of California, Davis

B.S., Mathematics, June 1993.

[POST-GRADUATE WORK EXPERIENCE]{.underline}

Sandia National Laboratories, Livermore, CA, Technical Staff Member (Jan
2004-present) Post Doc (Aug 2002-Jan 2004). Accomplishments includes:

-   Development of a parallel hybrid optimization scheme. In this
    research project, I investigated a sampling approach that combines a
    statistical Gaussian process model and an optimization pattern
    search. I created prototype software, HOPSPACK and demonstrated
    improved efficiency and robustness both for test problems and real
    applications problems in the areas of electrical engineering and
    groundwater. I received funding from the American Institute of
    Mathematics to lead a workshop on this topic as it applies to
    hydrology in Oct 2008.

-   Improvement of calibration and parameter estimation schemes for
    numerical simulators. To meet the needs of internal customers, I
    developed an automated procedure to improve the accuracy of
    numerical simulations. This work included developing appropriate
    objective functions, linking optimization and simulation codes, and
    analyzing results. The approach was applied to simulators for
    semiconductor bridges, groundwater flow, cardiovascular control, and
    mechanical systems.

-   Principal investigator for ensemble classification methods project.
    Over a 3-year span,  I led a multi-disciplinary research team,
    secured funding, scoped project to disparate data fusion, planned
    project milestones, presented implementation and execution progress
    to stakeholders on an annual basis, generated peer-reviewed papers
    on research innovation, and delivered results as major deliverable
    to Sandia grand challenge project focused on immune system response
    to pathogens. 

-   Verification and validation process lead for a radiation-hardened
    circuits project.  In this role, I planned experimental tests for
    multiple radiation facilities, analyzed experimental data, developed
    new code calibration methods, developed faster simulation processes,
    calibrated simulation codes, analyzed simulation data, and
    maintained frequent update and synchronization meetings with
    geographically-dispersed teams.

-   Maintenance, testing and revision of a C++ parallel optimization
    software code, Asynchronous Parallel Pattern Search (APPSPACK). As
    part of the APPSPACK code development team, I made changes to the
    software to reduce the minimum number of processors needed to run
    the code in parallel, worked on the release of the version of the
    code containing this change, produced documentation and performed
    extensive testing.

-   Development of an integrated computational/experimental model to
    address questions of transmembrane protein structure. I used my
    training in biology to interact with biologists and implement
    software to predict protein structures given experimental data from
    chemical cross-linking.

-   Demonstration of a multi-level, multi-fidelity method of
    optimization. As part of the team, I investigated, implemented,
    tested, and documented an approach to an optimization using
    surrogates and space mapping. The software was demonstrated on a
    mechanical engineering and a groundwater remediation problem.

[OTHER WORK EXPERIENCE]{.underline}

Rice University, Houston, TX, Teaching Assistant, Computational &
Applied Mathematics Department, 1997-2000.

California State University, Sacramento, Instructor, Mathematics
Department, 1995-1997

Bayer Laboratories, Berkeley, CA, Biotechnician, Recombinant Factor VIII
Division, 1995.

Calgene, Davis, CA, Research associate (1993-1994), Intern (1991-1993),
Tomato Research & Development Group.

[RESEARCH INTERESTS AND SKILLS]{.underline}

-   Research interests: Optimization, Computer Code Validation,
    Uncertainty Quantification, Decision Making, Statistics,
    Computational Biology, and Inverse Problems.

```{=html}
<!-- -->
```
-   Platforms used: Unix, Linux, Windows, and Macintosh environments.

-   Programming skills: Fortran 90, C, C++, MPI, Matlab, Latex, C-shell
    scripts and html.

-   Department of Energy clearance.

[REFEREED PAPERS]{.underline}

K. R. Fowler, G. A. Gray, M. S. Olufsen, "Modeling Heart Rate Regulation
Part II: Parameter Identification and Analysis," *J. Cardiovascular
Engineering*, vol. 8, no. 2, Jun 2008.

K. R. Fowler, J. P. Reese, C. E. Kees, J. E. Dennis, Jr., C. T. Kelley,
C. T. Miller, C. Audet, A. J. Booker, G. Couture, R. W. Darwin, M. W.
Farthing, D. E. Finkel, J. M. Gablonsky, G. A. Gray, T. G. Kolda, "A
Comparison of Derivative-free Optimization Methods for Water Supply and
Hydraulic Capture Community Problems," *Advances in Water Resources*,
vol. 31, issue 5, pp. 743-757, May 2008.

G. A. Gray, P. J. Williams, J. L. Faulon, M. Brown, K. L. Sale,
"Disparate Data Fusion for Protein Phosphorylation Prediction," *Annals
of Operations Research*, Special issue on data mining, in press.

H. K. H. Lee, R. Grammacy, M. Taddy, G. A. Gray, "Designing and
analyzing a circuit device experiment using treed Gaussian process,"
chapter for Oxford Handbook of Applied Bayesian Analysis, Oxford Univ.
Press, in press.

M. Taddy, H. K. H. Lee, G. A. Gray, J. D. Griffin, "Bayesian Guidance
for Robust Parallel Pattern Search Optimization," *Technometrics*, in
press. (available as Sandia National Labs Tech Report SAND2008-0104J).

G. A. Gray, M. Martinez-Canales, C. Lam, B. E. Owens, C. Hembree, D.
Beutler, C. Coverdale, "Designing Dedicated Experiments to Support
Validation and Calibration Activities for the Qualification of Weapons
Electronics," *Proceedings of the 14^th^ NECDC*, Jan 2007.

G. A. Gray, M. Taddy, M. Martinez-Canales, H. K. H. Lee, "Enhancing
Parallel Pattern Search with a Gaussian Process Oracle," *Proceedings of
the 14^th^ NECDC*, Jan 2007

G. A. Gray, T. G. Kolda, "APPSPACK 4.0: Asynchronous Parallel Pattern
Search for Derivative-Free Optimization," *ACM TOMS*, vol. 32, no. 3,
Sep 2006.

G. A. Gray, T. G. Kolda, K. L. Sale, M. M. Young, "Optimizing an
empirical scoring function for transmembrane protein structure
determination," *INFORMS J. Computing*, vol. 16, no. 4, pp. 406--418,
2004.

K. L. Sale, J-L. Faulon, G. A. Gray, J. Schoeniger, M. M. Young,
"Optimal bundling of the transmembrane helices of integral membrane
proteins using sparse distance constraints," *Protein Sci.*, vol. 13,
no. 10, pp. 2613--2627, 2004.

L. Borcea, G. A. Gray, Y. Zhang, "Variationally Constrained Numerical
Solution of Electrical Impedance Tomography," *Inverse Problems*, vol.
19, pp. 1159--1184, 2003.

[PUBLICATIONS IN PREPARATION, UNDER REVIEW AND UNREFEREED]{.underline}

G. A. Gray, J. Griffin, M. Taddy, M. Martinez-Canales, T. Kolda,
"HOPSPACK: Hybrid Optimization Parallel Pattern Search," Technical
Report SAND2008-8057, Sandia National Labs, Dec 2008.

T. Lowry, S. James, M. Grace, D. Arnold, G. A. Gray, M. Ahlmann,
"Development of a Deterministic Site Characterization Tool Using
Multi-Model Ranking and Inference," Technical Report SAND2008-5438,
Sandia National Labs, Jul 2008.

H. K. H. Lee, M. Taddy, G. A. Gray, "Selection of a Representative
Sample," under revision for *J Classification*, June 2008, available as
Sandia National Labs Report SAND2008-3857J.

G. A. Gray, M. Taddy, J. D. Griffin, H. K. H. Lee, M. Martinez-Canales,
"Hybrid Optimization: A Tool for Model Calibration," in preparation for
*IEEE Publication*, available as Sandia National Labs Report
SAND2008-0145J.

G. A. Gray, P. J. Williams, K. L. Sale, G. S. Davidson, "Datapipelining
for Heterogeneous Data Fusion," Technical Report SAND2007-6092, Sandia
National Laboratories, Sept 2007.

G. A. Gray, K. L. Sale, P. J. Williams, "Disparate Data Fusion for
Protein Phosphorylation Prediction," *Proceedings of the AI/DM
Pre-Conference Workshop* at the INFORMS Annual Meeting, Sept 2006.

J. P. Castro, G. A. Gray, A. A. Guinta, P. D. Hough, "Developing a
Computationally Efficient Dynamic Multilevel Hybrid Optimization Scheme
using Multiﬁdelity Model Interactions," Technical Report SAND2005-7498,
Sandia National Labs, Nov 2005.

D. Brown, G. A. Gray, "Implementation of a Data Fusion Algorithm for
RODS, a Real-time Outbreak and Disease Surveillance System," Technical
Report SAND 2005-6007, Sandia National Labs, Sept 2005.

G. A. Gray, "Parameter Identification for the Electrical Modeling of
Semiconductor Bridges," Technical Report SAND2005-0940, Sandia National
Labs, Feb 2005.

[CAREER DEVELOPMENT AWARDS]{.underline}

American Institute of Mathematics (AIM), Workshop on Derivative-Free
Hybrid Optimization Methods for Solving Simulation-Based Problems in
Hydrology, 2008 (co-organizer) and follow-on SQUARE in 2009.

Statistical and Applied Mathematical Science Institute (SAMSI), Program
on Risk Analysis, Extreme Events, and Decision Theory, 2007.

American Institute of Mathematics (AIM), Workshop on Short-term
Cardiovascular-Respiratory Control Mechanisms, Oct 2006.

Statistical and Applied Mathematical Sciences Institute (SAMSI), Program
on the Development, Assessment, and Utilization of Complex Computer
Models, 2006-07.

Mathematical Issues and Challenges in Data Assimilation for Geophysical
Systems: Interdisciplinary Perspectives, Institute for Pure and Applied
Math (IPAM), UCLA, Feb 2005.

Proteomics: Sequence, Structure, Function, IPAM, UCLA, spring 2004.

Computational Biophysics Summer School, Beckman Institute, UIUC,
Urbana-Champaign, IL, June 2003.

Institute for Advanced Studies Women's Program in Mathematics, Bio Math
Summer Session, May 2003.

[SELECTED PRESENTATIONS]{.underline}

Nov 2008 INFORMS Annual Meeting, Washington, DC, presentation:
"Derivative-Free Optimization for Hydrological Applications"

Jul 2008 Computational Methods in Water Resources, San Francisco, CA,
presentation: "The Applicability of Hybrid Optimization for Solving the
Plume Contaminant Problem"

May 2008 SIAM Conference on Optimization, Boston, MA, presentation:
"Some Considerations in Evaluating Derivative-Free Methods for
Simulation Based Optimization Problems"

Apr 2008 Conference on Iterative Methods, Copper Mountain, CO,
presentation: "Hybrid Optimization: Combining the Best to Overcome the
Worst"

Nov 2007 INFORMS Annual Meeting, Seattle, WA, presentation:
"Derivative-Free Optimization as a Tool for Simulator Calibration"

Aug 2007 The Second International Conference on Continuous Optimization,
Hamilton, ON, presentation: "Optimization as a Tool for the Calibration
of an Electrical Circuit Simulator."

June 2007 SIAM Conference on Control and Its Applications, San
Francisco, CA, presentation: "Parameter Estimation for a Model of
Baroreﬂex Regulation of Heartrate."

May 2007 Statistics Spring Research Conference, Ames, IA, presentation:
"The Importance of Dedicated Experiments to Support Model Calibration
and Validation Activities."

Apr 2007 Clarkson University, Potsdam, NY, Mathematics Colloquium: "Some
Considerations for Evaluating the Predictive Capabilities of Xyce, an
Electrical Circuit Simulator."

Jan 2007 INFORMS Computing Science Meeting, Coral Gables, FL,
presentation: "A Hybridization of Direct Search Optimization and Treed
Gaussian Process."

Nov 2006 INFORMS Annual Meeting, Pittsburgh, PA, presentation:
"Designing a Database to Support Electrical Circuit Validation."

Nov 2006 Workshop on Artificial Intelligence and Data Mining,
Pittsburgh, PA, presentation: "Disparate Data Fusion for Protein
Phosphorylation Prediction."

Oct 2006 NECDC Annual Meeting, Los Alamos National Lab, NM, plenary
talk: "Designing Dedicated Experiments to Support Validation and
Calibration Activities for the Qualification of Weapons Electronics,"
and presentation: "Enhancing Parallel Pattern Search Optimization with a
Gaussian Process Oracle."

Sept 2006 North Carolina State University, Raleigh, NC, Numerical
Analysis Colloquium: "Derivative-Free Methods for Simulation-Based
Optimization."

Sept 2006 SAMSI Kickoff Workshop for the Program in Development,
Assessment, and Utilization of Complex Computer Models, RTP, NC, invited
talk: "Verification, Validation, and Calibration of an Electrical
Circuit Simulator."

June 2006 University of Utrecht, The Netherlands, Geosciences Department
Colloquium: "Verification, Validation, and Calibration of Simulators"

June 2006 Computational Methods in Water Resources (CMWR), Copenhagen,
Denmark, invited talk: "Approaching the Groundwater Remediation Problem
Using Multifidelity Optimization."

Apr 2006 Iterative Methods Conference, Copper Mountain, CO,
presentation: "The Role of Optimization in the Verification, Validation,
and Calibration Processes"