Peter Q. Nguyen

Curriculum vitae

 PDF (Updated February 2015)


Education

Harvard University                  Postdoctoral Fellowship, Programmable Nanomaterials

Rice University                       Ph.D., Biochemistry

Keck Graduate Institute         M.B.S., Bioindustry Management and Bioinformatics

University of Texas                B.S., Biochemistry

University of Texas                B.A., Philosophy


Publications

* Nguyen PQ, Barstow B, Tay PK, Joshi NS. An optimized curli operon for the biosynthetic production of bionanomaterials. *In preparation for ACS Synthetic Biology.

* Yuksel DY*, Nguyen PQ*, Kobayashi M, Joshi NS, Ingber DE. Peptides for targeting therapeutics and diagnostics to early and late stage breast cancer lesions. * In preparation for PNAS; authorship shared.

MacKellar D, Lieber L, Norman J, Bolger T, Tobin C, Murray JW, Chang R, Ford T, Nguyen PQ, Woodward J, Permingeat H, Joshi NS, Silver PA, Usadel B, Rutherford AW, Friesen M, Prell J. Physiological reanalysis, assessment of diazotrophy, and genome sequences of multiple isolates of Streptomyces thermoautotrophicus. *In preparation for BMC Genomics.

* Botyanszki Z, Tay PK, Nguyen PQ, Joshi NS. Engineered catalytic biofilms: Site-specific enzyme immobilization onto E. coli curli fibers. Submitted to Biotechnol & Bioeng. 2015.

1.  Nguyen PQ, Botyanszki Z, Tay PK, Joshi NS. Programmable biofilm-based materials from engineered curli nanofibres. Nature Communications. 2014 Sep 17; 5: 4945. doi: 10.1038/ncomms5945.

2.  Rubin DJ, Nia HT, Desire T, Nguyen PQ, Gevelber M, Ortiz C, Joshi NS. Mechanical reinforcement of polymeric fibers through peptide nanotube incorporation. Biomacromolecules. 2013 Oct 14; 14(10): 3370-5. doi: 10.1021/bm4008293.

3.  Judd J, Wei F, Nguyen PQ, Tartaglia LJ, Agbandje-McKenna M, Silberg JJ, Suh J. Random Insertion of mCherry Into VP3 Domain of Adeno-associated Virus yields fuorescent capsids with no loss of infectivity. Molecular Therapy -- Nucleic Acids. 2012 Nov 13; 1:e54. doi: 10.1038/mtna.2012.46.

4.  Segall-Shapiro TH*, Nguyen PQ*, Dos Santos ED, Subedi S, Judd J, Suh J, Silberg JJ. Mesophilic and hyperthermophilic adenylate kinases differ in their tolerance to random fragmentation. Journal of Molecular Biology. 2011 Feb 11; 406(1): 135-48. doi: 10.1016/j.jmb.2010.11.057. *Authorship shared.

5.  Silberg JJ, Nguyen PQ, Stevenson T. Computational design of chimeric protein libraries for directed evolution. Methods in Molecular Biology. 2010; 673: 175-88. doi: 10.1007/978-1-60761-842-3_10.

6.  Nguyen PQ, Silberg JJ. A selection that reports on protein-protein interactions within a thermophilic bacterium. Protein Engineering Design and Selection. 2010 Jul; 23(7): 529-36. doi: 10.1093/protein/gzq024.

7.  Hoff KG, Culler SJ, Nguyen PQ, McGuire RM, Silberg JJ, Smolke CD. In vivo fluorescent detection of Fe-S clusters coordinated by human GRX2. Chemistry & Biology. 2009 Dec 24; 16(12): 1299-308. doi: 10.1016/j.chembiol.2009.11.011

8.  Silberg, JJ, and Nguyen, PQ. Models predicting optimized evolutionary strategies, in The Metabolic Pathway Engineering Handbook: Tools and Applications. 2009 Smolke, C. ed. CRC Press. pp. 5.1 – 5.27.

9.  Nguyen PQ, Liu S, Thompson JC, Silberg JJ. Thermostability promotes the cooperative function of split adenylate kinases. Protein Engineering Design and Selection2008 May; 21(5): 303-10. doi: 10.1093/protein/gzn005.

Journal Abstracts

1.   Zhai P, Stanworth C, Nguyen PQ, Liu S, and Silberg JJ. Saccharomyces cerevisiae Hep1 promotes the solubility of non-cognate chaperones and requires bound zinc for solubility. FASEB Journal. 2008 22: 1032.4.

2.  Nguyen PQ and Silberg JJ. Creating an assay to examine the effects of temperature on protein-protein interactions. Astrobiology 2008 8: 333.


Patents

1.  Joshi, N.S., Nguyen, P.Q. 2015. A Transcriptionally Optimized Curli Operon. In preparation.

2.  Yuksel, D.Y., Ingber, D.E., Nguyen, P.Q. 2015. Peptides for targeting therapeutics and diagnostics to early and late stage breast cancer lesions. Provisional Patent Submitted, 2015.

3. Joshi, N.S., Nguyen, P.Q. Duraj-Thatte, A., and Praveschotinunt, P. Use of engineered commensal bacterial extracellular matrices for therapeutic and diagnostic applications. Provisional Patent Submitted, 2015.

4.  Joshi, N.S., Nguyen, P.Q., and Botyanzski, Z.B. 2013. Genetic Reprogramming of Bacterial Biofilms. U.S. Patent filed Apr. 23, 2013.

5.  Silberg, J., Nguyen, P.Q. 2012. Protein fragment complementation assay for thermophiles. U.S. Patent 8,236,491, filed Sep. 23, 2010, and issued Aug. 7, 2012.


TEACHING EXPERIENCE

2015. Teaching Fellow Applied Physics II. Professor Eric Mazur. Harvard University, Cambridge, MA. Innovative team and project-based physics class using “peer instruction” pedagogical methods; covers elecricity, magnetism, circuits, and optics. 

2006, 2008. Lecturer Fundamental Concepts in Biology. Rice University. Houston, TX. Created and presented several class lectures on the principles of protein stability, folding, and protein misfolding diseases to undergraduate students.

2008-10. Graduate Seminar in Biochemistry & Cell Biology. Rice University. Houston, TX. Provided guidance and feedback to junior graduate students for developing efficient presentation skills and communication.

2007-08. Mentor Grant Proposal Writing. Rice University. Houston, TXProvided guidance and feedback to graduate students for writing proficient grant proposals.

2006. Teaching Assistant Biochemistry II. Professor Kevin R. Mackenzie. Rice University. Houston, TX. Advanced Biochemistry - metabolism, electron transport, and regulation.

2005. Teaching Assistant Molecular Biophysics I. Professor Pernilla Wittung-Stafshede. Mathematica-based simulations of biomolecule energetics, structure, and function.

2004-05. Lecturer Princeton Review. Austin, TX. Developed and taught preparatory classes for GMAT and MCAT tests. Typical class sizes were 150-200 students.


Professional Experience

1.  Cofounder. Clover Biotechnologies. Somerville, MA. Early-stage startup developing novel advanced materials for fused-deposition modeling-based 3D printers.

2.  Research Consultant. Eidogen Inc., Pasadena, CA. Computational Drug Discovery. Collaborative industrial project as part of the KGI Team Masters Project.

3.  Research Internship. Maxygen Inc., Redwood City, CA. Assay development and HTP screening design for the directed evolution of Laccase biocatalysts for pulp bleaching applications.


Invited Talks

2015. Synthetc Biology Engineering of Biofilms as Nanomaterials Factories. Synthetic Biology, Engineering, Evolution & Design 2015 Meeting. Boston, MA.

2015. Programmable Living Materials from Self-Assembling Extracellular Nanofibers. Materials Research Society Spring 2015 Meeting. San Francisco, CA

2014. Biofabrication and the Route to Commericalization. Radcliffe Institute for Advanced Study, Harvard University Exploratory Seminar: Enhancing Biology to Manufacture Designer Materials- New Frontiers in Biofabricaton. Boston, MA (Also discussion leader).

2009. A Split Adenylate Kinase Sensor for Detecting Protein-Protein Interactions in Thermophiles. American Institute of Chemical Engineers 2009 Annual Meeting, Nashville, TN.

2008. Thermostability Promotes the Cooperative Function of Split Adenylate Kinases. Texas Protein Folders 16th Annual Meeting. Camp Allen, TX. 


Conference Proceedings

Nguyen, P.Q., Botyanszki, Z., Tay, P.K., and Joshi, N.S. (2015) Biofilm-Integrated Nanofiber Display as a Platform for 3D Structural Materials. Emerging Themes and Technologies in Tissue Engineering and Bioprinting. Boston, MA.

Nguyen, P.Q., Botyanszki, Z., Tay, P.K., and Joshi, N.S. (2015) Programmable Biofilm-Based Materials from Engineered Curli Nanofibers. Gordon Research Conference: Macromolecular MaterialsVentura, CA.

Nguyen, P.Q., Botyanszki, Z., Tay, P.K., and Joshi, N.S. (2013) Biofilm-Integrated Nanofiber Display (BIND): Genetically Programmable Living Materials. BASF Harvard iTEAM Symposium (invitation only), Cambridge, MA.

Nguyen, P.Q., Botyanszki, Z., Tay, P.K., and Joshi, N.S. (2013) Programmable Biofilm-Based Materials from Engineered Curli Nanofibers. Boston Bacterial Meeting 2013, Boston, MA

Nguyen, P.Q., Botyanszki, Z., Tay, P.K., and Joshi, N.S. (2013) Programmable Biofilm-Based Materials from Engineered Curli Nanofibers. GlaxoSmithKline Global Chemistry Conference (invitation only), Boston, MA

Nguyen, P.Q. and Joshi, N.S. (2012) Self-assembling Gold Nanoparticle Supramolecular Structures by Peptide Nanotube Templating. Nanotech TechConnect World Conference and Expo 2012, Santa Clara, CA.

Nguyen, P.Q. and Joshi, N.S. (2012) Self-assembling Gold Nanoparticle Supramolecular Structures by Peptide Nanotube Templating. Bio-inspred Engineering International Symposium 2012, Cambridge, MA.

Nguyen, P.Q. and Silberg, J.J. (2009) A Split Adenylate Kinase Sensor for Detecting Protein-Protein Interactions in Thermophiles. American Institute of Chemical Engineers 2009 Annual Meeting, Nashville, TN.

Segall-Shapiro, T., Nguyen, P.Q. and Silberg, J.J. (2009) Accelerating the Design of Split Proteins with a Range of Cooperative Functions. American Institute of Chemical Engineers 2009 Annual Meeting, Nashville, TN.

Judd, J., Nguyen, P.Q., Silberg, J.J., and Suh, J. (2009) Construction of a Directed Evolution Library Platform for Modifying Adeno-Associated Viruses for Gene Therapy Applications. American Institute of Chemical Engineers 2009 Annual Meeting, Nashville, TN.

Judd, J., Nguyen, P.Q., Silberg, J.J., and Suh, J. (2009) Construction of a Directed Evolution Library Platform for Modifying Adeno-Associated Viruses for Gene Therapy Applications. Biomedical Engineering Society Annual Meeting, Pittsburgh, PA.

Duke, S., Layman, A., Ouyang, D., Segall-Shapiro, T., Shiehk, S., Stevenson, T., Beason, B., Bennett, G., Cox, K., Igoshin, O., Judd, J., Nguyen, P. Q., Silberg, J. J., and Suh, .J. (2008) BioBeer: Resveratrol-producing yeast for fermentation. 5th International Genetically Engineered Machine Competition, MIT, Cambridge, MA. 

Nguyen, P.Q., and Silberg, J.J. (2008) Optimizing the design of protein-fragment complementation assays by selecting proteins with varying stability. Rice University NIH Biotechnology Training Program Annual Retreat, Houston, TX.

Nguyen, P.Q. and Silberg, J.J., (2008) Creating an assay to examine the effect of temperature on hyperthermophilic protein-protein interactions. UTMB Structural Biology Symposium, Galveston, TX.

Nguyen, P.Q., and Silberg, J.J., (2008) Creating an assay to examine the effect of temperature on protein-protein interactions. 5th Astrobiology Science Conference, Santa Clara, CA, published in Astrobiology 8(2), pg 333.

Nguyen, P.Q., Liu, S, and Silberg, J.J., (2008) Thermostability promotes the cooperative function of adenylate kinase fragments. 16th Annual Texas Protein Folders Meeting, Navasota, TX.

Chen, T., Kim, D., Layman, A., Segall-Shapiro, T., Stevenson, T., Walker, A., Beason, B., Mukhopadhyay, B., Nguyen, P. Q., Peebles, C., Raol, J., and Silberg, J. J. (2007) Seek-and-destroy bacteria. 4th International Genetically Engineered Machine Competition, MIT, Cambridge, MA.

Nguyen, P.Q., Thompson, J., and Silberg, J.J., (2007) Thermostability promotes the cooperative function of adenylate kinase fragments. UTMB Structural Biology Symposium, Galveston, TX.

Nguyen, P.Q., Liu, S., Thompson, J.C., and Silberg, J.J. (2007) Thermostability promotes the cooperative function of split adenylate kinases. Rice Institute of Biosciences and Bioengineering 3rd Annual Symposium, Houston, TX.

Tina Chen, Shan Gao, Leah McKay, Teresa Monkkonen, Bibhash Mukhopadhyay, Jay Raol, Thomas Segall-Shapiro, Mary Kay Thompson, Jeremy Thompson, Nguyen, P.Q., Beth Beason, and Joff Silberg. (2006) Seek-and-destroy E. coli: Eavesdropping and stalking by quorumtaxis. 3rd International Genetically Engineered Machine Competition, MIT, Cambridge, MA.


Other

1. Illustrator for ScholAthlete's Survival Guide: Essential Study Skills for the Scholar Athlete. Authors, Tamsen Valoir and Jolanda Jones. (2008). http://www.amazon.com/ScholAthletes-Survival-Guide-Essential-Scholar-ebook/dp/B00INHXC4I