2001-2005

144. Wolfle W. T., Washington M. T., Kool E. T., Spratt T. E., Helquist S. A., Prakash L, Prakash S.,* Evidence for a Watson-Crick hydrogen bonding requirement in DNA synthesis by human DNA polymerase kappa. Mol. Cell. Biol. 2005, 25, 7137-7143.

143. Adam P. Silverman and Eric T. Kool,* Quenched autoligation probes allow discrimination of live bacterial species by single nucleotide differences in rRNA, Nucleic Acids Res. 200533, 4978-4986.

142. T. W. Kim, J. C. Delaney, J. M. Essigmann,* E. T. Kool,* Probing the Active Site Tightness of DNA Polymerase in Sub-Angstrom Increments, Proc. Natl. Acad. Sci. USA 2005, 102, 15803-15808.

141. Jörg S. Hartig and Eric T. Kool,* Efficient Isothermal Expansion of Human Telomeric and Minisatellite Repeats by Thermococcus litoralis DNA Polymerase, Nucleic Acids Res. 200533, 4922-4927.

140. Jörg. Hartig, Eric T. Kool,* Guanine-rich DNA Nanocircles for the Synthesis and Characterization of Long Cytosine-rich Telomeric DNAs, ChemBioChem 20056, 1458-1462.

139. Neal K. Devaraj, Gregory P. Miller, Wataru Ebina, Boyko Kakaradov, James P. Collman, Eric T. Kool, Christopher E. D. Chidsey,*  Chemoselective Covalent Coupling of Oligonucleotide Probes to Self-Assembled Monolayers, J. Am. Chem. Soc. 2005127, 8600-8601.

138. Andrea Cuppoletti, Younjin Cho, Jin Seong Park, Christoph Strässler, Eric T. Kool,* Oligomeric fluorescent labels for DNA, Bioconj. Chem. 200516, 528-534.

137. Jacob S. Lai and Eric T. Kool,* Fluorous Base-pairing Effects in a DNA Polymerase Active Site, Chemistry 200511, 2966-2971.

136. Jianmin Gao, Haibo Liu, Eric T. Kool,* Assembly of the complete eight-base artificial genetic helix, xDNA, and its interaction with the natural genetic system, Angew. Chem. Int. Ed. 200544, 3118-3122.

135. Eric T. Kool,* Design of Size-expanded Genetic Systems, ACS Polym. Preprints 200546, 133-134.

134. C. Yoshina-Ishii; G. P. Miller; M. L. Kraft; E. T. Kool; S. G. Boxer,* General Method for Modification of Liposomes for Encoded Assembly on Supported Bilayers, J. Am. Chem. Soc. 2005127, 1356-1357.

133. Adam P. Silverman, Eric T. Kool,* Quenched Probes for Highly Specific Detection of Cellular RNAs, Trends Biotechnol. 200523, 225-230.

132. Alex H. F. Lee and Eric T. Kool,* A New Four-base Genetic System, yDNA, Involving Widened Benzopyrimidine-purine Pairs, J. Am. Chem. Soc 2005127, 3332-3338.

131. Taewoo Kim and Eric T. Kool,* A Series of Nonpolar Thymidine Analogues of Increasing Size: DNA Base Pairing and Stacking Properties, J. Org. Chem. 200570, 2048-2053.

130. Alex H. F. Lee and Eric T. Kool* Novel Benzopyrimidines in a New Geometry for Widened Base Pairs, J. Org. Chem. 200570, 132-140.

129. Haibo Liu, Jianmin Gao, Eric T. Kool,* Size-expanded Analogues of dG and dC: Synthesis and Pairing Properties in DNA, J. Org. Chem. 2005, 70, 639-647.

128. Hiroshi Abe and Eric T. Kool,* Universal linkers for signal amplification in auto-ligating probes, Nucleic Acids Symp. Ser. 200549, 37-8.

127. Haibo Liu, Jianmin Gao, Eric T. Kool,* Helix-forming Properties of Size-expanded DNA (xDNA), an Alternative Four-base Genetic Form, J. Am. Chem. Soc. 2005, 127, 1396-1402.

126. Jörg S. Hartig and Eric T. Kool* Small circular DNAs for synthesis of the human telomere repeat: varied sizes, structures and telomere-encoding activities, Nucleic Acids Res. 200432, e152.

125. Taewoo Kim, Eric T. Kool,* A Set of Nonpolar Thymidine Nucleoside Analogues With Gradually Increasing Size,Org. Lett. 2004, 6, 3949-3952.

124. Jianmin Gao, Soichiro Watanabe, Eric T. Kool,* Modified DNA Analogues That Sense Light Exposure With Color Changes, J. Am. Chem. Soc. 2004126, 12748-12749.

123. Jianmin Gao, Haibo Liu, Eric T. Kool,* Expanded-size Bases in Naturally-sized DNA: Evaluation of Steric Effects in Watson-Crick Pairing, J. Am. Chem. Soc. 2004126, 11826.

122. Hiroshi Abe and Eric T. Kool,* Destabilizing universal linkers for signal amplification in self-ligating probes for RNA, J. Am. Chem. Soc. 2004126, 13980-13986.

121. Haige Lu, Kaizhang He, Eric T. Kool,* yDNA: A New Geometry for Size-expanded Base Pairs, Angew. Chem. Int. Ed. 200443, 5834-5836.

120. Haibo Liu, Stephen R. Lynch, Eric T. Kool,* Solution Structure of xDNA: A Paired Genetic Helix with Increased Diameter, J. Am. Chem. Soc. 2004126, 6900-6905.

119. Gregory P. Miller, Eric T. Kool,* Versatile 5′-Functionalization of DNA Oligonucleotides on Solid Support:   Amines, Azides, Thiols, and Thioethers via Phosphorus Chemistry, J. Org. Chem. 200469, 2404-2410.

118. Jacob Lai, Jin Qu, Eric T. Kool,* Selective Pairing Between Polyfluorinated DNA Bases, J. Am. Chem. Soc. 2004 126 , 3040-3041.

117. A. Niimi, S. Limsirichaikul, S. Yoshida, S. Iwai, C. Masutani, F. Hanaoka, E. T. Kool, Y. Nishiyama and M. Suzuki,* Palm mutants in DNA polymerases alpha and eta alter DNA replication fidelity and translesion activity,Mol. Cell. Biol. 200424, 2734-2746.

116. Angèle S. Maki, TaeWoo Kim, Eric T. Kool,* Direct Comparison of A-strand and T-strand Minor Groove Interactions in DNA Curvature at A Tracts, Biochemistry 200443, 1102-1110.

115. Haibo Liu, Jianmin Gao, David Saito, Lystranne Maynard, Eric T. Kool,* Toward a New Genetic System with Expanded Dimensions: Size-expanded Analogs of Deoxyadenosine and Thymidine, J. Am. Chem. Soc. 2004126, 1102-1109.

114. Michael Smietana, Robert B. Johnson, Q. May Wang, Eric T. Kool*, Solid-Phase Synthesis and Screening of Macrocyclic Nucleotide-Hybrid Compounds Targeted to Hepatitis C NS5B, Chem. Eur. J. 200410, 173-181.

113. Shinsuke Sando, Hiroshi Abe, Eric T. Kool,* Quenched Autoligating DNAs: Multicolor Identification of Nucleic Acids at Single Nucleotide Resolution, J. Am. Chem. Soc. 2004126, 1081-1087.

112. Anthony W. Francis, Sandra A. Helquist, Eric T. Kool, Sheila S. David,* Probing the Requirements for Recognition and Catalysis in Fpg and MutY With Nonpolar Adenine Isosteres, J. Am. Chem. Soc. 2003125, 16235-16242.

111. Angele Maki, Floyd E. Brownewell, Dongyu Liu, Eric T. Kool,* DNA curvature at A tracts containing a nonpolar thymine mimic, Nucleic Acids Res. 200331, 1059-1066.

110. Eric T. Kool* and Gregory L. Miller, 5′-Iodination of Solid-Phase-Linked Oligodeoxyribonucleotides, Current Protocols in Nucleic Acids Chemistry 2003, 4.19.1-4.19.8.

109. Haibo Liu, Jianmin Gao, Stephen Lynch, Lystranne Maynard, David Saito, Eric T. Kool,* A Four-base Paired Genetic Helix with Expanded Size, Science 2003302, 868-871.

108. Jacob S. Lai, Jin Qu, Eric T. Kool,* Fluorinated DNA Bases as Probes of Electrostatic Effects in DNA Base Stacking, Angewandte Chemie Int. Ed. 200342, 5973-5977.

107. Liping Sun, Kaijiang Zhang, Lilly Zhou, Paul Hohler, Eric T. Kool, X. F. Yuan, Zhigang Wang, John-Stephen Taylor,* Yeast Pol eta Holds a Cis-Syn Thymine Dimer Loosely in the Active Site During Elongation Opposite the 3′-T of the Dimer, but Tightly Opposite the 5′-T, Biochemistry 200342, 9431-9437.

106. J. W. Rausch, J. Qu, H. Y. Yi-Brunozzi E. T. Kool, S. F. J. Le Grice*, Hydrolysis of DNAs containing non-polar pyrimidine isosteres defines regions essential for HIV-1 polypurine tract selection, Proc. Natl. Acad. Sci. USA 2003100, 11279-11284.

105. T. J. Begley, B. J. Haas, J. C. Morales, E. T. Kool, R. P. Cunningham, Kinetics and Binding of the Thymine DNA Mismatch Glycosylase, Mig- Mth, with Mismatch-Containing DNA Substrates, DNA Repair 20032, 107-120.

104. James C. Delaney, Paul T. Henderson, Sandra A. Helquist, Juan C. Morales, John M. Essigmann* and Eric T. Kool,* High-fidelity in vivo replication of DNA base shape mimics without Watson-Crick hydrogen bonds, Proc. Natl. Acad. Sci. USA 2003100, 4469-4473.

103. M. Todd Washington, Sandra A. Helquist, Eric T. Kool, Louise Prakash, and Satya Prakash*, Requirement of Watson-Crick hydrogen bonding for the fidelity of yeast DNA polymerase eta, Mol. Cell. Biol. 200323, 5107-5112.

102. Hugo Morales and Eric T. Kool,* A Porphyrin C-Nucleoside Incorporated into DNA. Org. Lett. 200212, 4377-4380.

101. Serge Smirnov, Tracy J. Matray, Eric T. Kool, and Carlos de los Santos,* Integrity of duplex structures without hydrogen bonding: DNA with pyrene paired at abasic sites, Nucleic Acids Res. 200230, 5561-5569.

100. Ulf Lindström, Ravi Chandrasekharan, Lucian Orbai, Sandra Helquist, Gregory Miller, Sara Fernandez, Emin Oroudjev, Helen G. Hansma, Eric T. Kool,* Artificial human telomeres from DNA nanocircle templates, Proc. Natl. Acad. Sci. USA 200299, 15953-15958.

99. Gregory P. Miller, Eric T. Kool,* A Simple method for electrophilic functionalization of DNA, Org. Lett. 20024, 3599-3601.

98. Ulf Lindström and Eric T. Kool,* An orthogonal protecting group strategy that allows assembly of repetitive or highly structured DNAs, Nucleic Acids Res. 200230, e101.

97. Jianmin Gao, Christoph Strässler, Deborah C. Tahmassebi, Eric T. Kool*, Libraries of Composite Polyfluors Built from Fluorescent Deoxyribosides, J. Am. Chem. Soc. 2002124, 11590-11591.

96. Michael Smietana, Eric T. Kool,* Efficient and simple solid-phase synthesis of short cyclic oligodeoxynucleotides, Angew. Chem. Int. Ed. 2002, 41, 3704-3707.

95. Shinsuke Sando, Eric T. Kool,* Imaging of RNA in Bacteria with Self-ligating Quenched Probes, J. Am. Chem. Soc. 2002124, 9686-9687.

94. Bryan M. O’Neill, Jessica E. Ratto, Kristi L. Good , Deborah C. Tahmassebi,* Sandra A. Helquist, Juan C. Morales, Eric T. Kool,* A highly effective nonpolar isostere of deoxyguanosine: synthesis, structure, and base pairing, Biol. Chem. 2002383, 969-975.

93. Eric T. Kool, Replacing the nucleobases in DNA with designer molecules, Accounts Chem. Res. 200235, 936-943.

92. E. T. Kool, Active site tightness and substrate fit in DNA replication, Ann. Rev. Biochem. 200271, 191-219.

91. S. Sando and E. T. Kool,* Quencher as leaving group: efficient detection of DNA-joining reactions, J. Am. Chem. Soc. 2002, 124, 2096-2097.  

90. K. Drotschmann, M. C. Hall, P. V. Shcherbakova, H. Wang, D. A. Erie, F. R. Brownewell, E. T. Kool, and T. A. Kunkel,* DNA Binding Properties of the Yeast Msh2-Msh6 and Mlh1-Pms1 Heterodimers, Biochemistry 200240, 3215-3221.

89. T. Ohmichi, A. Maki, E. T. Kool,* Efficient bacterial transcription of DNA nanocircle vectors with optimized single-stranded promoters, Proc. Natl. Acad. Sci. USA 2002, 99, 54-59.

88. K. Drotschmann, W. Yang, F. E. Brownewell, E. T. Kool, T. A. Kunkel,* Asymmetric recognition of DNA local distortion: structure-based functional studies of eukaryotic Msh2-Msh6, J. Biol. Chem. 2001276, 46625-9.  

87. M. J. Schofield, F. E. Brownewell, S. Nayak, C. Du, E. T. Kool and P. Hsieh,* The Phe-X-Glu DNA binding motif of MutS: The role of hydrogen bonding in mismatch recognition, J. Biol. Chem. 2001276, 45505-8.

86. L. Dzantiev, Y. Alekseyev, J. C. Morales, E. T. Kool, and L. J. Romano,* Significance of nucleobase shape complementarity and hydrogen bonding in the formation and stability of the closed polymerase-DNA complex, Biochemistry 200140, 3215-3221.

85. Yanzheng Xu, Nilesh B. Karalkar and Eric T. Kool,* Nonenzymatic autoligation in direct three-color detection of RNA and DNA point mutations, Nature Biotechnology 200119, 148-152.

84. Eric T. Kool, Hydrogen bonding, base stacking, and steric effects in DNA replication, Ann. Rev. Biophys. Biomol. Struct.   2001, 30, 1-22.