Publications

Research Articles and Reviews

2021

Wong N.M., Frias E., Sigoillot F.D., Letendre J.H., Hild M., Wong W.W. (2021)
Engineering digitizer circuits for chemical and genetic screens in human cells.
Nature communications, (2021)12:6150. 

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Kiwimagi, K.A.*, Letendre, J.H.*, Weinberg B.H., Wang J., Chen M., Watanabe L., Myers C.J., Beal J., Wong W.W., Weiss R. (2021)
Quantitative characterization of recombinase-based digitizer circuits enables predictable amplification of biological signals.
Communications Biology, (2021)4:875. 

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Lin H., Lee H.J., Tague N., Lugagne, J.B., Zong C., Deng, F., Shin J., Tian L., Wong W.W., Dunlop M., Cheng J.X. (2021)
Microsecond fingerprint stimulated Raman spectroscopic imaging by ultrafast tuning and spatial-spectral learning.
Nature communications, (2021)12:3052. 

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Kim T., Weinberg B.H., Wong W.W., Lu T.K. (2021)
Scalable recombinase-based gene expression cascades.
Nature communications, (2021)12:2711. 

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Tan X*., Letendre J.H*.,  Collins J.J., Wong W.W. (2021)
Synthetic biology in the clinic: engineering vaccines, diagnostics, and therapeutics.
Cell, (2021)184:881-898. 

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Cho J.H., Okuma A., Sofjan K., Lee S., Collins J., Wong W. (2021)
Engineering advanced logic and distributed computing in human CAR immune cells.
Nature Communications, (2021)12:792. 

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Tague N.*, Lin H.*, Lugagne J.B., Burman D., Wong W.W., Cheng J.X., Dunlop M.J. (2021)
Single-cell chemical imaging of engineered strains reveals heterogeneity in fatty acid production.
bioRxiv, (2021). 

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Israni D.V.*, Li H.*, Gagnon K.A., Sander J.D., Roybal K.T., Keith J.K., Wong W.W., Khalil A.S. (2021)
Clinically-driven design of synthetic gene regulatory programs in human cells.
bioRxiv, (2021). 

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2020

Bowyer J.E., Ding C., Weinberg B.H., Wong W.W., Bates D.G. (2020)
A mechanistic model of the BLADE platform predicts performance characteristics of 256 different synthetic DNA recombination circuits.
PLOS Computational Biology, (2020)16(12):e1007849. 

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Lee S., Wong W.W. (2020)
The Most Logical Approach to Improve CAR T Cell Therapy.
Cell Systems, (2020)11:421-423. 

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Olson A.*, Basukala B.*, Lee S., Gagne M., Wong W.W., Henderson A.J. (2020)
Targeted Chromatinization and Repression of HIV-1 Provirus Transcription with Repurposed CRISPR/Cas9.
Viruses, (2020)12:1154. 

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Sheets M.B., Wong W.W., Dunlop M.J. (2020)
Correction to Light-Inducible Recombinases for Bacterial Optogenetics. (vol 9, pg 227, 2020);
ACS Synthetic Biology, (2020)9:2857-2859. 

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Chen Y.Y., Lim W., Levings M., Blazar B., Krenciute G., Wong W.W., Lehner M. (2020)
What is the Optimal Design-Build-Test Cycle for Clinically Relevant Synthetic CAR T Cell Therapies?
Cell Systems, (2020)11:212-214. 

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Sheets M.B., Wong W.W., Dunlop M.J.. (2020)
Light-Inducible Recombinases for Bacterial Optogenetics.
ACS Synthetic Biology, (2020)9(2):227-235. 

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Bowyer J.E., Chakravarti D., Wong W.W., Bates D.G. (2020)
Mechanistic modelling of tyrosine recombination reveals key parameters determining the performance of a CAR T cell switching circuit.
Engineering Biology, (2020)4:10-19. 

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Cho J.H., Okuma A., Al-Rubaye D., Intisar E., Junghans R.P., Wong W.W. (2020)
Author Correction: Engineering Axl specific CAR and SynNotch receptor for cancer therapy. (vol 8, 3846, 2018);
Scientific Reports, (2020)10:3000. 

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Li H.*, Wong N.M.*, Tague E., Ngo J.T., Khalil A.S., Wong, Wong W.W. (2020)
Engineering clinically-approved drug gated CAR circuits.
bioRxiv, (2020). 

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2019

Weinberg B., Cho J.H., Agarwal Y., Pham N.T.H., Caraballo L., Walkosz M., Ortega C., Trexler M., Tague N., Law B., Benman W., Letendre J., Beal J., Wong W. (2019)
High-performance chemical and light-inducible recombinases in mammalian cells and mice. 
Nature Communications, (2019)10:4845. 

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Olson A., Basukala B., Wong W., Henderson, A. (2019)
Targeting HIV-1 proviral transcription. 
Curr. Op. Virology, 38:89-96. 

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Chakravarti D., Caraballo L.D., Weinberg B., Wong W. (2019).
Inducible gene switches with memory in human T cells for cellular immunotherapy.
ACS Synth Biol, (2019) 8(8):1744-1754. 

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Gagne, M., Michaels, D., Schiralli Lester, G.M., Gummuluru, S., Wong, W.W., Henderson, A.J. (2019) 
Strength oF T cell signaling regulates HIV-1 replication and establishment of latency.
PLoS Pathogens, eCollection 2019 May. 

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2018

Cho J.H., Collins J.J., Wong, W.W. (2018).
Universal Chimeric Antigen Receptors for Multiplexed and Logical Control of T Cell Responses.
Cell, 173(6):1426-1438.  

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News coverage:
Nature article “Souped-up T cells home in on cancer”
Endpoints News article “Senti scientific co-founder Wilson Wong designs the SUPRA — a new, high performance model CAR-T”
Fierce Biotech article “CAR-T 2.0? A split, universal and programmable system”
GEN News article “Controllable “Swiss Army Knife” CAR T Cells Solve Key Efficacy and Safety Issues”
Medical Xpress article “Upgrading the immune system to fight cancer”
ecancer News article “Customising CAR T methods to upgrade the immune system”
Biocentury article “Senti co-founders describe tunable CAR T system”
News Medical article “New CAR-T therapy could provide safer, more effective cancer treatment”
BU Engineering News article “Upgrading the Immune System to Fight Cancer”

Wong N.M.L., Wong W.W. (2018).
Engineering a Dual Small Molecule Gated ZAP70 Switch in T Cells.
ACS Synthetic Biology, 7(4):969-977.  

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Cho J.H., Okuma A., Al-Rubaye D., Intisar E., Junghans R.P., Wong W.W. (2018).
Engineering Axl specific CAR and SynNotch receptor for cancer therapy.
Scientific Reports, 8(1):3846.

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Brenner M.J.*, Cho J.H.*, Wong N.M.L.*, Wong W.W.  (2018).
Synthetic Biology: Immunotherapy by Design.
Annual Review of Biomedical Engineering, 20:95-118. (*co-first author)

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2017

Wong W., Tan C., Adamala K., Xia X., Erb T., Chatterjee A. (2017).
What Is the Role of Circuit Design in the Advancement of Synthetic Biology? Part 3.
Cell Systems, 4(6):579-580.

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Weinberg B.H., Pham N.T.H., Caraballo L.D., Lozanoski T., Engel A., Bhatia S., Wong W.W.  (2017).
Large-scale design of robust genetic circuits with multiple inputs and outputs for mammalian cells.

Nature Biotechnology, 35(5):453-462.

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Datasheets for the 113 circuits describe in Figure 3 (Website developed by Prof. Swapnil Bhatia)
News coverage:
WIRED article on “Scientists Hack a Human Cell and Reprogram It Like a Computer”
Science article on “Scientists turn mammalian cells into complex biocomputers”

Phys.org article on “Programming human cells to follow sets of logical instructions”
Futurism article on “New Research Turns Mammalian Cells Into Biocomputers”
BU Engineering News article on “How to Hack a Cell”

Brenner M.J.*, Cho J.H.*, Wong W.W. (2017) (*co-first author)
Synthetic biology: Sensing with modular receptors.
Nature Chemical Biology, 3(2):131-132.
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Aquino P., Honda B., Jaini S., Lyubetskaya A., Hosur K., Chiu J.G., Ekladious I., Hu D., Jin L., Sayeg M.K., Stettner A.I., Wang J., Wong B.G., Wong W.S., Alexander S.L., Ba C., Bensussen S.I., Bernstein D.B., Braff D., Cha S., Cheng D.I., Cho J.H., Chou K., Chuang J., Gastler D.E., Grasso D.J., Greifenberger J.S., Guo C., Hawes A.K., Israni D.V., Jain S.R., Kim J., Lei J., Li H., Li D., Li Q., Mancuso C.P., Mao N., Masud S.F., Meisel C.L., Mi J., Nykyforchyn C.S., Park M., Peterson H.M., Ramirez A.K., Reynolds D.S., Rim N.G., Saffie J.C., Su H., Su W.R., Su Y., Sun M., Thommes M.M., Tu T., Varongchayakul N., Wagner T.E., Weinberg B.H., Yang R., Yaroslavsky A., Yoon C., Zhao Y., Zollinger A.J., Stringer A.M., Foster J.W., Wade J., Raman S., Broude N., Wong W.W., Galagan J.E. (2017).
Coordinated regulation of acid resistance in Escherichia coli. 
BMC Systems Biology, 11(1):1.

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2016

Bowyer J., Zhao J., Subsoontorn P., Wong W.W., Rosser S., Bates D. (2016).
Mechanistic Modeling of a Rewritable Recombinase Addressable Data Module.
IEEE Transactions on Biomedical Circuits and Systems, 99: 1-10.

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Chakravarti D., Cho J.H., Weinberg B.H., Wong N.M., Wong W.W. (2016).
Synthetic biology approaches in cancer immunotherapy, genetic network engineering, and genome editing.
Integrative Biology,  18;8(4):504-17.

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2015

Chakravarti D., Wong, W.W. (2015).
Synthetic biology in cell-based cancer immunotherapy.
Trends in Biotechnology33(8), 449–461.

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Cell podcast on “How synthetic biology can contribute to new approaches to cancer treatment. 9:15”

Sayeg M.K.*, Weinberg B.H.*, Cha S.S., Goodloe M., Wong W.W.#, Han, X.#. (2015). (*co-first author, #co-corresponding author)
Rationally Designed MicroRNA-Based Genetic Classifiers Target Specific Neurons in the Brain.
ACS Synthetic Biology, 4:788-795

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Previous work

Wei P.*, Wong W.W.*, Park J.S., Corcoran E.E., Peisajovich S.G., Onuffer J.J., Weiss A., Lim W.A.  2012. (*co-first author)
Bacterial virulence proteins as tools to rewire MAPK signaling in yeast and immune cells.
Nature. 488: 384-388.

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Wong W.W., Liao J.C.  2009.
Microbial maximal specific growth rate as a square-root function of biomass yield and two kinetic parameters.
Metabolic Engineering. 11(6):409-14.

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Wong W.W., Tran L.M., Liao J.C. 2008.
A hidden square-root boundary between growth rate and biomass yield.
Biotechnology and Bioengineering. 1(102): 73-80.

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Wong W.W., Tsai T.Y., Liao J.C. 2007. 
Single-cell zeroth-order protein degradation enhances the robustness of synthetic oscillator.
Molecular Systems Biology. 3(130): 1-8.

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Xie X., Wong W.W., Tang Y. 2007.
Improving simvastatin bioconversion in Escherichia coli by deletion of bioH.
Metabolic Engineering.  9(4): 379-386.

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Wong W.W., Liao J.C. 2006.
The design of intracellular oscillators that interact with metabolism.
Cellular and Molecular Life Science.  63(11): 1215-1220.

Brynildsen M.P., Wong W.W., Liao J.C. 2005.
Transcriptional regulation and metabolism. 
Biochemical Society Transactions. 33(6): 1423-1426.

Fung E., Wong W.W., Suen J.K., Bulter T., Lee S., Liao J.C. 2005.
A synthetic gene-metabolic oscillator.
Nature. 435(5): 118-122.

Bulter T., Lee S., Wong W.W., Fung E., Connor M. and Liao J.C. 2004.

Design of artificial cell-cell communication for gene and metabolic circuits.
Proceedings of the National Academy of Science, USA. 101(8): 2299-2304.

Wong W.W., and Newman J.S.  2002.
Monte Carlo Simulation of the Open-Circuit Potential and the Entropy of Reaction in Lithium Manganese Oxide.
Journal of the Electrochemical Society. 149(4): A493-A498.
  

Wang J., Chun H.J., Wong W.W., Spencer D.M., and Lenardo M.J.  2001.
Caspase-10 is an initiator caspase in death receptor signaling. 
Proceedings of the National Academy of Science, USA. 98(24): 13884-13888.
  

 

Book Chapters

Wong W.W., Liao J.C.  2010.
A Synthetic Approach to Transcriptional Regulatory Engineering.
The Metabolic Pathway Engineering HandbookFundamentals, CRC Press, Chapter 14.

Wong W.W., Liao J.C.  2009.
The Synthetic Approach for Regulatory Circuits and Metabolism. 

Systems Biology and Synthetic Biology, John Wiley & Sons, Chapter 14.