User:Xi Chen: Difference between revisions
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== Xi Chen == | == Xi Chen == | ||
[[Image:Xichenpic.jpg|thumb|left|Xi Chen (UT-Austin)]] | |||
[[Image: | *Note: The information here is about 1.5-year old. I will update it soon! | ||
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, and will move to the Yin Lab in Sep 2012 as a full-time Jane Coffin Childs postdoctoral fellow. | |||
== Research == | == 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 Although I have created a few unpublished RNA regulators that work minimally (by my standard), | The first 3 years of my graduate study were spent primarily on engineering ribozyme-based RNA regulators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 Although I have created a few unpublished RNA regulators that work minimally (by my standard), I mainly focused on the development of a method to directly select physiologically active ribozymes in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 developed by the Winfree Lab and the Pierce Lab in Caltech. I have started designing and executing similar circuits for the purpose of biosensing | 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. | 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) [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 | |||
# '''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. | |||
# 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. | |||
# 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) [http://www.ncbi.nlm.nih.gov/pubmed/20041206 Design Principles for Ligand-Sensing, Conformation-Switching Ribozymes.] '''''PLoS Comput. Biol.''''' 5(12):e1000620 | |||
# '''Chen X''', Denison L, Levy M, Ellington AD. (2009) [http://www.ncbi.nlm.nih.gov/pubmed/19776159 Direct Selection for Ribozyme Cleavage Activity in Cells.] '''''RNA''''' 15(11):2035-45 | |||
# '''Chen X''', Li N, Ellington AD. (2007) [http://www.ncbi.nlm.nih.gov/pubmed/17443876 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) [http://www.ncbi.nlm.nih.gov/pubmed/16470893 Construction of Molecular Logic Gates with a DNA-cleaving Deoxyribozyme.] '''''Angew. Chem. Int. Ed. Engl.''''' 45(11):1759-62. | |||
(This link is left here [http://en.wikipedia.org/wiki/Wikipedia:Tutorial_%28Formatting%29 formating examples].) | |||
== Contact == | |||
xichen at mail dot utexas dot edu | |||
== Miscellaneous == | |||
===Scientific interest=== | |||
[[User:Xi_Chen:SynBioLib|Synthetic Biology Library]] | |||
===Personal life=== | |||
*[http://dl.dropbox.com/u/11482398/Ruoyu/%28GIF-3%29%20Bad-Guy-Is-You.gif Ruoyu Pic 1 (1 month, "Bad guy is you!")] | |||
*[http://dl.dropbox.com/u/11482398/Ruoyu/%28GIF-4%29%20Sway-with-me.gif Ruoyu Pic 2 (1 month, "Sway with me!")] | |||
*[http://dl.dropbox.com/u/11482398/Ruoyu/%28GIF-2%29%202012-03-17%20Rianne_with_toy.gif Ruoyu Pic 3 (1 month, Ruoyu with toy)] | |||
Latest revision as of 09:51, 28 September 2013
Xi Chen
- Note: The information here is about 1.5-year old. I will update it soon!
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, and will move to the Yin Lab in Sep 2012 as a full-time Jane Coffin Childs postdoctoral fellow.
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
