2008

E. E. Regulski and Breaker, R. R., “In-line probing analysis of riboswitches.”, Methods Mol Biol, vol. 419, pp. 53-67, 2008. [PubMed]

2007

J. N. Kim, Roth, A., and Breaker, R. R., “Guanine riboswitch variants from Mesoplasma florum selectively recognize 2'-deoxyguanosine.”, Proc Natl Acad Sci U S A, vol. 104, no. 41, pp. 16092-7, 2007. [PubMed]
A. Wachter, Tunc-Ozdemir, M., Grove, B. C., Green, P. J., Shintani, D. K., and Breaker, R. R., “Riboswitch control of gene expression in plants by splicing and alternative 3' end processing of mRNAs.”, Plant Cell, vol. 19, no. 11, pp. 3437-50, 2007. [PubMed]
E. Stern, Wagner, R., Sigworth, F. J., Breaker, R., Fahmy, T. M., and Reed, M. A., “Importance of the Debye screening length on nanowire field effect transistor sensors.”, Nano Lett, vol. 7, no. 11, pp. 3405-9, 2007. [PubMed]
M. T. Cheah, Wachter, A., Sudarsan, N., and Breaker, R. R., “Control of alternative RNA splicing and gene expression by eukaryotic riboswitches.”, Nature, vol. 447, no. 7143, pp. 497-500, 2007. [PubMed]
Z. Yao, Barrick, J., Weinberg, Z., Neph, S., Breaker, R., Tompa, M., and Ruzzo, W. L., “A computational pipeline for high- throughput discovery of cis-regulatory noncoding RNA in prokaryotes.”, PLoS Comput Biol, vol. 3, no. 7, p. e126, 2007. [PubMed]
K. F. Blount, Wang, J. Xin, Lim, J., Sudarsan, N., and Breaker, R. R., “Antibacterial lysine analogs that target lysine riboswitches.”, Nat Chem Biol, vol. 3, no. 1, pp. 44-9, 2007. [PubMed]
K. H. Link, Guo, L., Ames, T. D., Yen, L., Mulligan, R. C., and Breaker, R. R., “Engineering high-speed allosteric hammerhead ribozymes.”, Biol Chem, vol. 388, no. 8, pp. 779-86, 2007. [PubMed]
A. Roth, Winkler, W. C., Regulski, E. E., Lee, B. W. K., Lim, J., Jona, I., Barrick, J. E., Ritwik, A., Kim, J. N., Welz, R., Iwata-Reuyl, D., and Breaker, R. R., “A riboswitch selective for the queuosine precursor preQ1 contains an unusually small aptamer domain.”, Nat Struct Mol Biol, vol. 14, no. 4, pp. 308-17, 2007. [PubMed]
R. Welz and Breaker, R. R., “Ligand binding and gene control characteristics of tandem riboswitches in Bacillus anthracis.”, RNA, vol. 13, no. 4, pp. 573-82, 2007. [PubMed]
Z. Weinberg, Barrick, J. E., Yao, Z., Roth, A., Kim, J. N., Gore, J., Wang, J. Xin, Lee, E. R., Block, K. F., Sudarsan, N., Neph, S., Tompa, M., Ruzzo, W. L., and Breaker, R. R., “Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline.”, Nucleic Acids Res, vol. 35, no. 14, pp. 4809-19, 2007. [PubMed]
J. E. Barrick and Breaker, R. R., “The distributions, mechanisms, and structures of metabolite-binding riboswitches.”, Genome Biol, vol. 8, no. 11, p. R239, 2007. [PubMed]
B. J. Boese and Breaker, R. R., “In vitro selection and characterization of cellulose-binding DNA aptamers.”, Nucleic Acids Res, vol. 35, no. 19, pp. 6378-88, 2007. [PubMed]
J. Barrick and Breaker, R. R., “The Power of Riboswitches”, Scientific American, 2007. [Link]

2006

J. Lim, Grove, B. C., Roth, A., and Breaker, R. R., “Characteristics of ligand recognition by a glmS self-cleaving ribozyme.”, Angew Chem Int Ed Engl, vol. 45, no. 40, pp. 6689-93, 2006. [PubMed]
N. Sudarsan, Hammond, M. C., Block, K. F., Welz, R., Barrick, J. E., Roth, A., and Breaker, R. R., “Tandem riboswitch architectures exhibit complex gene control functions.”, Science, vol. 314, no. 5797, pp. 300-4, 2006. [PubMed]
A. Serganov, Polonskaia, A., Phan, A. Tuân, Breaker, R. R., and Patel, D. J., “Structural basis for gene regulation by a thiamine pyrophosphate-sensing riboswitch.”, Nature, vol. 441, no. 7097, pp. 1167-71, 2006. [PubMed]
J. Lim, Winkler, W. C., Nakamura, S., Scott, V., and Breaker, R. R., “Molecular-recognition characteristics of SAM-binding riboswitches.”, Angew Chem Int Ed Engl, vol. 45, no. 6, pp. 964-8, 2006. [PubMed]
E. Puerta-Fernandez, Barrick, J. E., Roth, A., and Breaker, R. R., “Identification of a large noncoding RNA in extremophilic eubacteria.”, Proc Natl Acad Sci U S A, vol. 103, no. 51, pp. 19490-5, 2006. [PubMed]
K. F. Blount and Breaker, R. R., “Riboswitches as antibacterial drug targets.”, Nat Biotechnol, vol. 24, no. 12, pp. 1558-64, 2006. [PubMed]

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