2011-2015

255. Saswata Karmakar, Emily M. Harcourt, David S. Hewings, Alexander F. Lovejoy, David M. Kurtz, Thomas Ehrenschwender, Luzi J. Barandun, Caroline Roost, Ash A. Alizadeh, and Eric T. Kool,* Organocatalytic removal of formaldehyde adducts from RNA and DNA bases, Nat Chem, 2015, 7, 752-758.

254. Sarah K. Edwards, Toshikazu Ono, Shenliang Wang, Wei Jiang, Raphael M. Franzini, Jong Wha Jung, Ke Min Chan, and Eric T. Kool,* In Vitro Fluorogenic Real-Time Assay of the Repair of Oxidative DNA Damage,Chembiochem, 2015, 16, 1637-1646.

253. Robert C. Spitale, Ryan A. Flynn, Qiangfeng Cliff Zhang, Pete Crisalli, Byron Lee, Jong-Wha Jung, Hannes Y. Kuchelmeister, Pedro J. Batista, Eduardo A. Torre, Eric T. Kool,* and Howard Y. Chang, Structural imprints in vivo decode RNA regulatory mechanisms, Nature, 2015, 519, 486-490.

252. Hyukin Kwon, Wei Jiang, and Eric T. Kool,* Pattern-based detection of anion pollutants in water with DNA polyfluorophores, Chemical Science, 2015, 6, 2575-2583.

251. Caroline Roost , Stephen R Lynch , Pedro J. Batista , Kun Qu , Howard Y. Chang , and Eric T. Kool,* Structure and Thermodynamics of N6-methyladenosine in RNA: a Spring-Loaded Base Modification, J Am Chem Soc, 2015, 137, 2107-2115.

250. Dennis Larsen, Michael Pittelkow, Saswata Karmakar, and Eric T. Kool,* New Organocatalyst Scaffolds with High Activity in Promoting Hydrazone and Oxime Formation at Neutral pH, Org Lett, 2015, 17, 274-277.

249. Lik Hang Yuen, Raphael M. Franzini, Samuel S. Tan, and Eric T. Kool,* Large-scale Detection of Metals with a Small Set of Fluorescent DNA-like Chemosensors, J Am Chem Soc, 2014, 136, 14576-14582.

248. Robert C. Spitale, Ryan A. Flynn, Eduardo A. Torre, Eric T. Kool* and Howard Y. Chang, RNA structural analysis by evolving SHAPE chemistry, Wiley Interdiscip Rev RNA, 2014, 5, 867-881.

247. Lik Hang Yuen, Raphael M. Franzini, Shenliang Wang, Pete Crisalli, Vijay Singh, Wei Jiang, and Eric T. Kool,* Pattern-based Detection of Toxic Metals in Surface Water with DNA Polyfluorophores, Angew Chem Int Ed Engl,2014, 53, 5361-5365.

246. Liang Xu, Linati Da, Steven W. Plouffe, Jenny Chong, Eric Kool,* and Dong Wang, Molecular basis of transcriptional fidelity and DNA lesion-induced transcriptional mutagenesis, DNA Repair (Amst), 2014, 19, 71-83.

245. Liang Xu, Kyle V. Butler, Jenny Chong, Jesper Wengel, Eric T. Kool,* and Dong Wang, Dissecting the chemical interactions and substrate structural signatures governing RNA polymerase II trigger loop closure by synthetic nucleic acid analogues, Nucleic Acids Res, 2014, 42, 5863-5870.

244. Eric T. Kool,* Pete Crisalli, and Ke Min Chan, Fast Alpha Nucleophiles: Structures that Undergo Rapid Hydrazone/Oxime Formation at Neutral pH, Org Lett, 2014, 16, 1454-1457.

243. Emily M. Harcourt, Thomas Ehrenschwender, Pedro J. Batista, Howard Y. Chang, and Eric T. Kool,* Identification of a Selective Polymerase Enables Detection of N6-Methyladenosine in RNA, J Am Chem Soc, 2013, 135, 19079-19082.

242. Malte Winnacker and Eric T. Kool,* Artificial genetic sets composed of size-expanded base pairs, Angew Chem Int Ed Engl, 2013, 52, 12498-12508.

241. Eric T. Kool,* Do-Hyoung Park, and Pete Crisalli, Fast Hydrazone Reactants: Electronic and Acid/Base Effects Strongly Influence Rate at Biological pH, J. Am. Chem. Soc., 2013, 135, 17663-17666.

240. Wei Jiang, Shenliang Wang, Likhang H. Yuen, Hyukin Kwon, Toshikazu Ono, Eric T. Kool,* DNA-polyfluorophore Chemosensors for Environmental Remediation: Vapor-phase Identification of Petroleum Products in Contaminated Soil, Chem. Sci., 2013, 4, 3184-3190.

239. James Attwater, Shunsuke Tagami, Michiko Kimoto, Kyle Butler, Eric T Kool,* Jesper Wengel, Piet Herdewijn, Ichiro Hirao, and Philipp Holliger, Chemical fidelity of an RNA polymerase ribozyme, Chem. Sci., 2013, 4, 2804-2814.

238. Toshikazu Ono, Sarah K. Edwards, Shenliang Wang, Wei Jiang, and Eric T. Kool,* Monitoring eukaryotic and bacterial UDG repair activity with DNA-multifluorophore sensors, Nucleic Acids Res., 2013, 41, e127.

237. Vijay Singh, Shenliang Wang, and Eric T. Kool,* Genetically Encoded Multispectral Labeling of Proteins with Polyfluorophores on a DNA Backbone, J. Am. Chem. Soc., 2013, 16, 6184-6191.

236. Pete Crisalli and Eric T. Kool,* The Importance of ortho Proton Donors in Catalysis of Hydrazone Formation,Org. Lett., 2013, 15, 1646-1649.

235. Jong-Hwa Jung, Sarah K. Edwards and Eric T. Kool,* Selective Fluorogenic Chemosensors for Distinct Classes of Nucleases, ChemBioChem, 2013, 14, 440-444.

234. Pete Crisalli and Eric T. Kool,* Water-soluble Organocatalysts for Hydrazone and Oxime Formation, J. Org. Chem., 2013, 78, 1184-1189.

233. Robert C. Spitale, Pete Crisalli, Ryan A. Flynn, Eduardo A. Torre, Eric T. Kool,* and Howard Y. Chang*, RNA SHAPE Analysis in Living Cells, Nat. Chem. Biol., 2013, 9, 18-20.

232. Pete Crisalli, Armando R. Hernandez, and Eric T. Kool,* Fluorescence Quenchers for Hydrazone and Oxime Orthogonal Bioconjugation, Bioconj. Chem., 2012, 23, 1969-1980.

231. Seoung Ho Lee, Shenliang Wang, and Eric T. Kool,* Templated Chemistry for Monitoring Damage and Repair Directly in Duplex DNA, Chem. Comm., 2012, 48, 8069-8071.

230. Hyukin Kwon, Florent Samain, and Eric T. Kool,* Fluorescent DNAs Printed on Paper: Sensing Food Spoilage and Ripening in the Vapor Phase, Chem. Sci., 2012, 3, 2542-2549.

229. Shenliang Wang, Jia Guo, Toshikazu Ono, and Eric T. Kool,* DNA Polyfluorophores for Real-Time Multicolor Tracking of Dynamic Biological Systems, Angew. Chem. Int. Ed., 2012, 51, 7176-7180.

228. Armando R. Hernandez, Larryn W. Peterson, and Eric T. Kool,* Steric Restrictions of RISC in RNA Interference Identified with Size-Expanded RNA Nucleobases, ACS Chem. Biol., 2012, 7, 1454-1461.

227. Matthew William Kellinger, Sebastien Ulrich, Jenny Chong, Eric T. Kool,* and Dong Wang, Dissecting Chemical Interactions governing RNA Polymerase II Transcriptional Fidelity, J. Am. Chem. Soc., 2012, 134, 8231-8240.

226. Yin Nah Teo and Eric T. Kool,* DNA-Multichromophore Systems, Chem. Rev. 2012, 112, 4221-4245.

225. Omid Khakshoor, Steven E. Wheeler,* K. N. Houk and Eric T. Kool,* Measurement and Theory of Hydrogen Bonding Contribution to Isosteric DNA Base Pairs, J. Am. Chem. Soc. 2012, 134, 3154-3163.

224. Emily M. Harcourt and Eric T. Kool,* Amplified MicroRNA Detection by Templated Chemistry, Nucleic Acids Res., 2012, 40, e65.

223. Toshikazu Ono, Shenliang Wang, Chi-Kin Koo, Lisa Engstrom, Sheila S. David and Eric T. Kool,* Direct Fluorescence Monitoring of DNA Base Excision Repair, Angew. Chem. Int. Ed., 2012, 51, 1689-1692.

222. Paige L. McKibbin, Akio Kobori, Yosuke Taniguchi, Eric T. Kool,* and Sheila S. David, Surprising Repair Activities of Nonpolar Analogs of 8-oxoG Expose Features of Recognition and Catalysis by Base Excision Repair Glycosylases,J. Am. Chem. Soc., 2011, 134, 1653-1661.

221. Sébastien Ulrich and Eric T. Kool,* Importance of Steric Effects on the Efficiency and Fidelity of Transcription by T7 RNA Polymerase, Biochemistry, 2011, 50, 10343-10349.

220. Pete Crisalli and Eric T. Kool,* Multi-Path Quenchers: Efficient Quenching of Common Fluorophores, Bioconj. Chem. 2011, 22, 2345-2354.

219. Andrew T. Krueger, Larryn W. Peterson, Jijumon Chelliserry, Daniel J. Kleinbaum and Eric T. Kool,* Encoding Phenotype in Bacteria with an Alternative Genetic Set, J. Am. Chem. Soc., 2011, 133, 18447-18451.

218. Chi-Kin Koo, Shenliang Wang, Rajiv L. Gaur, Florent Samain, Niaz Banaei and Eric T. Kool,* Fluorescent DNA Chemosensors: Identification of Bacterial Species by Their Volatile Metabolites, Chem. Commun., 2011, 41, 11435-11437.

217. Raphael M. Franzini and Eric T. Kool,* Improved Templated Fluorogenic Probes Enhance the Analysis of Closely Related Pathogenic Bacteria by Microscopy and Flow Cytometry, Bioconj. Chem., 2011, 22, 1869-1877.

216. Chi-Kin Koo, Florent Samain, Nan Dai and Eric T. Kool,* DNA polyfluorophores as highly diverse chemosensors of toxic gases, Chem. Sci., 2011, 2, 1910-1917.

215. Omid Khakshoor and Eric T. Kool,* Chemistry of Nucleic Acids: Impacts in Multiple Fields, Chem. Commun.,2011, 47, 7018-7024.

214. Nan Dai, Jia Guo, Yin Nah Teo and Eric T. Kool,* Protease Probes Built from DNA: Multispectral Fluorescent DNA–Peptide Conjugates as Caspase Chemosensor, Angew. Chem. Int. Ed., 2011, 50, 5105-5109.

213. Jia Guo, Shenliang Wang, Nan Dai, Yin Nah Teo and Eric T. Kool,* Multispectral Labeling of Antibodies with Polyfluorophores on a DNA Backbone and Application in Cellular Imaging, Proc. Nat. Acad. Sci., 2011, 108, 3493-3498.

212. Nan Dai and Eric T. Kool,* Fluorescent DNA-based Enzyme Sensors, Chem. Soc. Rev., 2011, 40, 5756-5770.

211. Samuel S. Tan, Su Jeong Kim and Eric T. Kool,* Differentiating between Fluorescence-Quenching Metal Ions with Polyfluorophore Sensors Built on a DNA Backbone, J. Am. Chem. Soc., 2011, 133, 2664-2671.

210. Raphael M. Franzini and Eric T. Kool,* Two Successive Reactions on a DNA Template: A Strategy for Improving Background Fluorescence and Specificity in Nucleic Acid Detection, Chem. Eur. J.2011, 17, 2168-2175.

209. Armando R. Hernandez and Eric T. Kool,* The Components of xRNA: Synthesis and Fluorescence of a Full Genetic Set of Size-Expanded Ribonucleosides, Org. Lett.2011, 13, 676-679.

208. Florent Samain, Nan Dai and Eric T. Kool,* Differentiating a Diverse Range of Volatile Organic Compounds with Polyfluorophore Sensors Built on a DNA Scaffold, Chem. Eur. J.2011, 17, 174-183.