Thuy Dan Vo

Graduate Student

Thesis: Systems biology of metabolic networks: iterative computational and experimental characterization of cells in normal and disease states.

I'm a fourth year bioinformatic graduate student. I have reconstructed and characterized a metabolic model for the human cardiac mitochondria and core models for cardiomyocyte and hepatocyte. I have also developed an optimization-based framework to calculate reaction fluxes based on carbon tracer data (isotopomer data). Currently, I am carrying out 13C tracer experiments with normal and diseased fibroblasts to study cellular metabolic responses to changes in culture medium composition.

Education

2002-present

University of California, San Diego
PhD program in Bioinformatics
GPA: 3.91/4.0

1997-2001

University of California, Berkeley
BA Chemistry and Genetics
GPA: 3.7/4.0

Research Experience

Systems Biology Research Group, UCSD
Prof. Bernhard Palsson

Dept. of Bioengineering, UC Berkeley
Prof. Adam Arkin

Dept. of Pharmaceutical Chemistry, UCSF
Prof. R. Kip Guy

Dept. of Chemistry, UC Berkeley
Prof. David MacMillan

Dept. of Chemistry, UC Berkeley
Prof. Sung-Hua Kim

Teaching Experience

Instructor

Inha University, Korea

Workshop on Systems Biology

Teaching Assistant

University of California, San Diego

BENG 212. Systems Biology and Bioengineering II: Network Reconstruction

University of Calfifornia, Berkeley

Chem 4A: General Chemistry and Quantitative Analysis

Chem 5: Quantitative Chemical Analysis

Phillips Academy, Andover

General chemistry

Honors and Awards

Graduate Research and Education in Adaptive bio-Technology Training (GREAT) Fellowship (2005-2007)

San Diego Graduate Fellowship (2002-2004)

Bachelor of Arts Degree with High Honors

Glen Seaborg Award for Outstanding Undergraduate Research

Dept. of Energy Undergraduate Research Fellowship

Howard Hughes Undergraduate Research Fellowship

Publications

Articles

Vo, T.D., Lim, S.K., Lee, W.N.Pl, and Palsson, B.O, "Isotopomer analysis of cellular metabolism in tissue culture: A comparative study between the pathway and network-based methods," Metabolomics, accepted

Vo, T.D. and Palsson, B.O, Building the power house: Recent advances in mitochondrial studies through proteomics and systems biology, AJP Cell Physiology

Vo, T.D. and Palsson, B.O, http://www3.interscience.wiley.com/cgi-bin/fulltext/112735201/PDFSTART Isotopomer analysis of myocardial substrate metabolism: A systems biology approach"] Biotechnology and Bioengineering

Thiele, I., Vo.D., Price, N.D., and Palsson, B.O, "An Expanded Metabolic Reconstruction of Helicobacter pylori (iIT341 GSM/GPR): An in silico genome-scale characterization of single and double deletion mutants", Journal of Bacteriology, [187(16):] 5818-5830 (2005).

Thiele, I., Price, N.D., Vo, T.D., and Palsson, B.O, "Candidate metabolic network states in human mitochondria: Impact of diabetes, ischemia, and diet", Journal of Biological Chemistry (2004)

Vo, T.D., Greenberg, H.J., and Palsson, B.Ø., "Reconstruction and functional characterization of the human mitrochondrial metabolic network based on proteomic and biochemical data", Journal of Biological Chemistry (2004).

Reed, J.L., Vo, T.D., Schilling, C.H., and Palsson, B.Ø., "expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)", Genome Biology, 4(9): R54.1-R54.12 (2003).

Book chapter

Jamshidi, N., Vo, T.D., and Palsson, B.O, in silico analysis of SNPs and other high throughput data. Methods in Molecular Biology: Cardiac Gene Expression and Regulation. Totowa: Humana Press, Inc.

Conferences

Louisville Symposium on Environmental Metabolomics

Oral presentation
Louisville, KY, Nov 2005

UC Biotechnology Research and Education Program - GREAT Fellowship

Oral presentation
Laguna Beach, CA, Oct 2005

SACNAS: Society for Advancement of Chicanos and Native Americans in Science

Denver, CO, Sep 2005

An in silico mitochondrion: A tool for data integration and metabolic flux analysis

Poster presentation at PharmaDiscovery
Washington, DC, May 2005
Thuy D. Vo, Ines Thiele, Nathan D. Price, and Bernhard O. Palsson

Metabolic Flux Analysis in Mitochondria

Poster at Gordon Research Conference: Oxidative Stress and Diseases
Ventura, CA, Mar 2005
Thuy D. Vo, Ines Thiele, Nathan D. Price, and Bernhard O. Palsson

Metabolic Flux Analysis in Mitochondria

Poster at 49th Annual Meeting of the Biophysical Society
Long Beach, CA, Feb 2005
Thuy D. Vo, Ines Thiele, Nathan D. Price, and Bernhard O. Palsson

Towards an in silico Mitochondrion
Talk at Southern California Biomedical Engineering Student Symposium Los Angeles, CA, Jan 2005
Thuy D. Vo and Bernhard O. Palsson

Resume

Contact Information

Email Address: tvo@bioeng.ucsd.edu

Phone: (858)822-1144

Mailing Address: 9500 Gilman Drive Mail Code 0412 La Jolla, CA 92093-0412

Location

Location

417 Powell-Focht Bioengineering Hall

9500 Gilman Drive La Jolla, CA 92093-0412

Contact Us

Contact Us

In Silico Lab:  858-822-1144

Wet Lab:  858-246-1625

FAX:   858-822-3120

Website Concerns: sbrgit@ucsd.edu

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