User:Xi Chen: Difference between revisions
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== Selected Publications == | == Selected Publications == | ||
(Note: * denotes corresponding author or co-corresponding author) | (Note: * denotes corresponding author or co-corresponding author) | ||
# '''Chen X*'''. (in press) Expanding the Rule Set of DNA Circuitry with Associative Toehold Activation. '''''J. Am. Chem. Soc.''''' | # Li B, Jiang Y, '''Chen X*''', Ellington AD. (2012) [http://www.ncbi.nlm.nih.gov/pubmed/22894754 Probing Spatial Organization of DNA Strands Using Enzyme-Free Hairpin Assembly Circuits.] '''''J. Am. Chem. Soc.''''' (in press) doi:10.1021/ja300984b | ||
# Li B, Ellington AD, '''Chen X*'''. (2011) Rational, | # '''Chen X*'''. (2012) [http://www.ncbi.nlm.nih.gov/pubmed/22129141 Expanding the Rule Set of DNA Circuitry with Associative Toehold Activation.] '''''J. Am. Chem. Soc.''''' 134(1):263-71. | ||
# Eckhoff G, Codrea V, Ellington AD, '''Chen X*'''. (2010) Beyond | # Li B, Ellington AD, '''Chen X*'''. (2011) [http://www.ncbi.nlm.nih.gov/pubmed/21693555 Rational, Modular Adaptation of Enzyme-free DNA Circuits to Multiple Detection Methods.] '''''Nucleic Acids Res.''''' 39(16):e110. | ||
# '''Chen X''', Ellington AD. (2010) Shaping up | # Eckhoff G, Codrea V, Ellington AD, '''Chen X*'''. (2010) [http://www.jsystchem.com/content/1/1/13 Beyond Allostery: Catalytic Regulation of a Deoxyribozyme Through an Entropy-driven DNA Amplifier.] '''''J. Syst. Chem.''''' 1:13 | ||
# '''Chen X''', Ellington AD. (2010) [http://www.ncbi.nlm.nih.gov/pubmed/20538451 Shaping up Nucleic Acid Computation (Review).] '''''Curr. Opin. Biotechnol.''''' 21(4):392-400 | |||
# '''Chen X''', Ellington AD. (2009) Design Principles for Ligand-Sensing, Conformation-Switching Ribozymes. '''''PLoS Comput. Biol.''''' 5(12):e1000620 | # '''Chen X''', Ellington AD. (2009) Design Principles for Ligand-Sensing, Conformation-Switching Ribozymes. '''''PLoS Comput. Biol.''''' 5(12):e1000620 | ||
# '''Chen X''', Denison L, Levy M, Ellington AD. (2009) Direct | # '''Chen X''', Denison L, Levy M, Ellington AD. (2009) Direct Selection for Ribozyme Cleavage Activity in Cells '''''RNA''''' 15(11):2035-45 | ||
# '''Chen X''', Li N, Ellington AD. (2007) Ribozyme | # '''Chen X''', Li N, Ellington AD. (2007) Ribozyme Catalysis of Metabolism in the RNA World. (Review) '''''Chem. Biodivers.''''' 4(4):633-55. | ||
# '''Chen X''', Wang Y, Liu Q, Zhang Z, Fan C, He L. (2006) Construction of | # '''Chen X''', Wang Y, Liu Q, Zhang Z, Fan C, He L. (2006) Construction of Molecular Logic Gates with a DNA-cleaving Deoxyribozyme. '''''Angew. Chem. Int. Ed. Engl.''''' 45(11):1759-62. | ||
Revision as of 19:32, 22 August 2012
Xi Chen
I am currently a post-doc fellow in the lab of Andrew D. Ellington in the University of Texas at Austin. I am also a visiting fellow of the Yin Lab in Wyss Institute of Harvard University.
Research
The first 3 years of my graduate study were spent primarily on engineering ribozyme-based RNA regulators in mammalian cells. Although I have created a few unpublished RNA regulators that work minimally (by my standard), I mainly focused on the development of a method to directly select physiologically active ribozymes in mammalian cells, and a kinetic model to analyze and direct such selections. I then extended this kinetic model to analyze and predict the performance of ribozyme- and deoxyribozyme-based sensors in vitro and in vivo.
Since late 2008, I became interested in enzyme-free DNA circuits initially developed by the Winfree Lab and the Pierce Lab in Caltech. I have started designing and executing similar circuits for the purpose of biosensing, pattern formation, and chemical synthesis.
After graduation, I stayed in the Ellington Lab to keep working on DNA circuits.
Selected Publications
(Note: * denotes corresponding author or co-corresponding author)
- Li B, Jiang Y, Chen X*, Ellington AD. (2012) Probing Spatial Organization of DNA Strands Using Enzyme-Free Hairpin Assembly Circuits. J. Am. Chem. Soc. (in press) doi:10.1021/ja300984b
- Chen X*. (2012) Expanding the Rule Set of DNA Circuitry with Associative Toehold Activation. J. Am. Chem. Soc. 134(1):263-71.
- Li B, Ellington AD, Chen X*. (2011) Rational, Modular Adaptation of Enzyme-free DNA Circuits to Multiple Detection Methods. Nucleic Acids Res. 39(16):e110.
- Eckhoff G, Codrea V, Ellington AD, Chen X*. (2010) Beyond Allostery: Catalytic Regulation of a Deoxyribozyme Through an Entropy-driven DNA Amplifier. J. Syst. Chem. 1:13
- Chen X, Ellington AD. (2010) Shaping up Nucleic Acid Computation (Review). Curr. Opin. Biotechnol. 21(4):392-400
- Chen X, Ellington AD. (2009) Design Principles for Ligand-Sensing, Conformation-Switching Ribozymes. PLoS Comput. Biol. 5(12):e1000620
- Chen X, Denison L, Levy M, Ellington AD. (2009) Direct Selection for Ribozyme Cleavage Activity in Cells RNA 15(11):2035-45
- Chen X, Li N, Ellington AD. (2007) Ribozyme Catalysis of Metabolism in the RNA World. (Review) Chem. Biodivers. 4(4):633-55.
- Chen X, Wang Y, Liu Q, Zhang Z, Fan C, He L. (2006) Construction of Molecular Logic Gates with a DNA-cleaving Deoxyribozyme. Angew. Chem. Int. Ed. Engl. 45(11):1759-62.
(This link is left here formating examples.)
Contact
xichen at mail dot utexas dot edu
