Journal Articles
114.
Carrasquilla, C., Lau, P. S., Li, Y., Brennan, J. D. (2012). Stabilizing structure-switching signaling RNA aptamers by entrapment in sol-gel derived materials for solid-phase assays. J. Am. Chem. Soc. 134, 10998-11005. [link]
113.
Aguirre, S. D., Ali, M. M., Kanda, P., Li, Y. (2012). Detection of bacteria using fluorogenic DNAzymes. Journal of Visualized Experiments. 63, pii: 3961. doi: 10.3791/3961. [link]
112.
Hossain, S. M. Z., Ozimok, C., Ali, M. M., Aguirre, S. D., Li, Y. and Brennan, J. D. (2012). Multiplexed paper test strip for quantitative bacterial detection. Anal. Bioanal. Chem. 403(6):1567-76. [link]
111.
Ali, M. M., Aguirre, S. D., Mok, W. W. K., & Li, Y. (2012). Developing fluorogenic RNA-cleaving DNAzymes for biosensing applications. Methods Mol. Biol. 848, 395-418. [link]
110.
Carrasquilla, C., Xiao, Y., Xu, C. Q., Li, Y., & Brennan, J. D. (2011). Enhancing sensitivity and selectivity of long-period grating sensors using structure-switching aptamers bound to gold-doped macroporous silica coatings. Anal. Chem. 83, 7984-91. [link]
109.
Li, Y. (2011). Advancements in using reporter DNAzymes for identifying pathogenic bacteria at speed and with convenience. Future Microbiol. 6, 973-976. [link]
108.
Lam, J. C. F., Kwan, S. O., & Li, Y. (2011). Characterization of non-8-17 sequences uncovers structurally diverse RNA-cleaving deoxyribozymes. Molecular BioSystems. 7, 2139-2146. [link]
107.
Xu, Y., Pharand, L., Wen, Q., Gonzaga, F., Ali, M. M., Li, Y., Filipe, C. D. M., & Pelton, R. (2011). Controlling biotinylation of microgels and modeling streptavidin uptake. Colloid and Polymer Science. 289, 659-666. [link]
106.
Ali, M. M., Aguirre, S. D., Lazim, H., & Li, Y. (2011). Fluorogenic DNAzyme probes as bacterial indicators. Angewandte Chemie International Edition. 50, 3751-4. [link]
Featured in:
[Science Daily]
[CTS TV News]
[McMaster Daily News]
[Internetchemistry.com]
[PhysOrg.com]
[Innovations Report]
105.
Carrasquilla, C., Li, Y., & Brennan, J. D. (2011). Surface immobilization of structure-switching DNA aptamers on macroporous sol-gel-derived films for solid-phase biosensing applications. Analytical Chemistry. 83, 957-965. [link]
104.
Ali, M. M, Kanda, P., Aguirre, S. D., & Li, Y. (2011). Modulation of DNA-modified gold-nanoparticle stability in salt with concatemeric single-stranded DNAs for colorimetric bioassay development. Chemistry – A European Journal. 17, 2052-2056. [link]
103.
Lau, P. S. & Li, Y. (2011). Functional nucleic acids as molecular recognition elements for small organic and biological molecules. Curr. Org. Chem. 15, 557-575. Invited review. [link]
102.
Mok, W. W. K., Patel, N., & Li, Y. (2010). Decoding toxicity: Deducing the sequence requirements of IbsC, a type I toxin in Escherichia coli. Journal of Biological Chemistry. 285: 41627-36. [link]
101.
Lau, P. S., Coombes, B. K., & Li, Y. (2010). A general approach to the construction of structure-switching reporters from RNA aptamers. Angew. Chem. Int. Ed. 49, 7938-7942. [link]
100.
McManus, S. A., & Li, Y. (2010). The structural diversity of deoxyribozymes. Molecules. 15, 6269-6284. Review. [link]
99.
Wang, B., Cao, L., Chiuman, W., Li, Y. & Xi, Z. (2010). Probing the function of nucleotides in the catalytic cores of the 8-17 and 10-23 DNAzymes by abasic nucleotide and C3 spacer substitutions. Biochemistry 49, 7553-7562. [link]
98.
Lam, J. & Li, Y. (2010). Influence of cleavage site on global folding of an RNA-cleaving DNAzyme. ChemBioChem. 11, 1710 – 1719. [link]
97.
Fowler, C. C., Brown, E. D. & Li, Y. (2010). Using a riboswitch sensor to monitor coenzyme B12 metabolism and transport in E. coli. Chem. Biol. 17, 756-765. [link]
96.
Lam, J. C., Withers, J. B. & Li, Y. (2010). A complex RNA-cleaving DNAzyme that can efficiently cleave a pyrimidine-pyrimidine junction. J. Mol. Biol. 400, 689-701. [link]
95.
Budz, H. A., Ali, M. M., Li, Y. & LaPierre, R. R. (2010). Photoluminescence model for a hybrid aptamer-GaAs optical biosensor. J. Appl. Phys. 107, 104702 (1-9). [link]
94.
Schlosser, K. & Li, Y. (2010). A versatile endoribonuclease made of DNA: characteristics and applications of the 8-17 DNAzyme. ChemBioChem. 11, 866-879. Review. [link]
93.
Ali, M. M, Aguirre, S. D., Xu,Y., Filipe, C. D. M., Pelton, R. & Li, Y. (2009). Detection of
DNA using bioactive paper strips. Chem. Comm. 2009, 6640-2. [link]
92.
Kandadai, S. A., Mok, W. W. K., Ali, M. M., & Li, Y. (2009). Characterization and
optimization of an RNA-cleaving deoxyribozyme active at pH 5. Biochemistry 48, 7383-91. [link]
91.
Schlosser, K., Lam, J. & Li, Y. (2009). A genotype-to-phenotype map of in vitro selected RNA-
cleaving DNAzymes: Implications for accessing the target phenotype. Nucleic Acids Res. 37,
3545-57. [link]
90.
Ali, M. M., Imoto, S., Li, Y., Sasaki, S. & Nagatsugi. (2009). Incorporation of an inducible
nucleotide analog into DNA by DNA polymerases. Bioorg. Med. Chem. 17, 2859-63. [link]
89.
Nakamura, I., Shi, A., Nutiu, R., Yu, J. M. Y. & Li, Y. (2009). Kinetic modeling of designed
signaling DNA aptamers. Physical Review E. 79: 031906. [link]
88.
Ali, M. M. & Li, Y. (2009). Colorimetric sensing using allosteric DNAzyme-coupled rolling
circle amplification and a peptide nucleic acid-organic dye probe. Angew. Chem. Int. Ed. 48,
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87.
Schlosser, K. & Li, Y. (2009). Biologically inspired synthetic enzymes made from DNA. Chem.
Biol. Invited review. 16, 311-22. [link]
86.
Schlosser, K. & Li, Y. (2009). DNAzyme-mediated catalysis with only guanosine and cytidine
nucleotides. Nucleic Acids Res. 37, 413-420. [link]
85.
Mok, W. W. K., Navani, N. K. Barker, C., Sawchyn, B. L., Gu, J., Pathania, R., Zhu, R. D.,
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of small RNAs. ChemBioChem. 10, 238-241. [link]
84.
Mok, W. W. K. & Li, Y. (2008). Recent progress in nucleic acid aptamer-based biosensors
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83.
Zhao, W., Ali, M. M., Aguirre, S., Brook, M. A. & Li, Y. (2008). Paper-based bioassays using
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82.
Sun, G., Fan, J., Wang, Z., Li, Y. (2008). A DNA-catalyzed aldol reaction in water. SynLett.
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81.
Zhao, W., Brook, M. A. & Li, Y. (2008). Design of gold nanoparticle-based colorimetric
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80.
Schlosser, K., Gu, J., Lam, J. C. F. & Li, Y. (2008). In vitro selection of small RNA-cleaving
deoxyribozymes that cleave pyrimidine-pyrimidine junctions. Nucleic Acids Res. 36, 4768-
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79.
Fan, J., Sun, G., Wan, C., Wang, Z. & Li, Y. (2008). Investigation of DNA as a catalyst for
Henry reaction in water. Chem. Comm. 2008, 3792-3794. [link]
78.
Li, Y. (2008). Chemical bology meets systems biology. Biochem. Cell Biol. 86, vii-viii. [link]
77.
Fowler, C. C., Brown, E. D. & Li, Y. (2008). A FACS-based approach to engineering
artificial riboswitches. ChemBioChem. 9, 1906-1911. [link]
76.
Zhao, W., Ali, M. M., Brook, M. A., & Li, Y. (2008). Rolling Circle Amplification: New
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Zhao, W., Lam, J. C. F, Chiuman, W., Brook, M. A. & Li, Y. (2008). Enzymatic cleavage of
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Zhao, W., Chiuman W., Lam, J. C. F, McManus, S. A., Chen, W., Cui, Y., Pelton, R., Brook,
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Su, S., Ali, M. M., Filipe, C. D. M., Li, Y. & Pelton, R. (2008). Microgel-based inks for paper-supported biosensing applications. Biomacromolecules. 9, 935-941. [link]
72.
Schlosser, K., & Li, Y. (2008). Sequence-function relationships provide new insight into the
cleavage site selectivity of the 8-17 RNA-cleaving deoxyribozyme. Nucleic Acids Res. 36,
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McManus, S. A. & Li, Y. (2008). A deoxyribozyme with a novel guanine quartet-helix
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Yang, J., Sandhu, P., Liang, W, Xu, C.-Q.,. & Li, Y. (2007). Label-free fiber optic biosensors
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Schlosser K. & Li, Y. (2007). Understanding DNA-based catalysis one molecule at a time. Nat.
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Chiuman, W. & Li, Y. (2007). Simple fluorescent sensors engineered with catalytic DNA MgZ
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Allali-Hassani, A., Pereira, M. P., Navani, N. K., Brown, E. D. & Li, Y. (2007). Isolation of
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Ali, M. M., Su, S., Filipe, C. D. M., Pelton, R. & Li, Y. (2007). Enzymatic manipulations of
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Fowler, C. C. & Li, Y. (2007). Aptamers and small molecules play tug of war. Chem. Biol. 14,
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Zhao, W., Chiuman, W., Lam, J. C. F, Brook, M. A. & Li, Y. (2007). Simple and rapid
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Zhao, W., Gonzaga, F., Li, Y. & Brook, M. A. (2007). Highly stabilized nucleotide-capped
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Zhao, W., Chiuman, W., Brook, M. A. & Li, Y. (2007). Simple and rapid colorimetric
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Ali, M. M., Kandadai, S. & Li, Y. (2007). Characterization of pH3DZ1—an RNA-Cleaving
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Craney, Ar., Hohenauer, T., Xu, Y., Kumar, N., Li, Y. & Nodwell, J. (2007). A synthetic
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Shen, Y., Mackey, G., Rupcich, N., Gloster, D., Chiuman, W., Li, Y. and Brennan, J. D. (2007).
Entrapment of fluorescence-signaling DNA enzymes in sol-gel derived materials for metal
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Yang, J., Yang, L., Xu, C-Q., Huang, W. and Li, Y. (2007). Optimization of cladding structure
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McManus, S., Li, Y. (2007). Multiple occurrences of an efficient self-phosphorylating
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Chiuman, W. & Li, Y. (2007). Efficient signaling platforms built from a small catalytic DNA
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Su, S., Nutiu, N., Filipe, C. D. M., Li, Y. & Pelton, R. (2007). Adsorption and covalent
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Shen, Y., Chiuman, W., Brennan, J. D. & Li, Y. (2006). Catalytic and signaling properties of trans-acting
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Chiuman, W. & Li, Y. (2006). Evolution of high-branching deoxyribozymes from a catalytic
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Yang, J., Yang, L., Xu, C.-Q., Xu, C., Huang, W. & Li, Y. (2006) Long-period grating
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Elowe, N. H., Nutiu, R., Allali-Hassani, A., Cechetto, J. D., Hughes, D. W., Li, Y. & Brown, E.
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Zhao, W., Gao, Y., Brook, M. A. & Li, Y. (2006) Wrapping single-walled carbon nanotubes
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Zhao, W., Gao, Y., Kandadai, S. A., Brook, M. A. & Li, Y. (2006) DNA polymerization on
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Navani, N. K. & Li, Y. (2006) Nucleic acid aptamers and enzymes as sensors. Curr. Opin.
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Kandadai, S. A., Chiuman, W. & Li, Y. (2006). Phosphoester-transfer mechanism of an RNA-
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Schlosser, K., Lam, J. & Li, Y. (2006). Characterization of long RNA-cleaving deoxyribozymes
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Rupcich, N., Nutiu, R., Li, Y. & Brennan, J. D. (2006). Solid-phase enzyme activity assay
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Chiuman, W. & Li, Y. (2006). Revitalization of six abandoned catalytic DNA species reveals a
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Rupcich, N., Chiuman, W., Nutiu, R., Mei, S., Flora, K. K., Li, Y. & Brennan, J. D. (2006).
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Schlosser, K. & Li, Y. (2005). Diverse evolutionary trajectories characterize a community of
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Shen, Y., Brennan, J. D. & Li, Y. (2005). Characterizing the secondary structure and identifying
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