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The He Group Publications
2014
196.

Yu, M.; Song, C. X.; He, C. Detection of mismatched 5-hydroxymethyluracil in DNA by selective chemical labeling. Methods 2014. [ahead of print] [pdf]

 

195.

Luo, G. Z.; MacQueen, A.; Zheng, G.; Duan, H.; Dore, L. C.; Lu, Z.; Liu, J.; Chen, K.; Jia, G.; Bergelson, J.; He, C. Unique features of the m(6)A methylome in Arabidopsis thaliana. Nat. Commun. 2014, 5, 5630. [pdf]

 

194.

Zhao, X.; Yang, Y.; Sun, B. F.; Shi, Y.; Yang, X.; Xiao, W.; Hao, Y. J.; Ping, X. L.; Chen, Y. S.; Wang, W. J.; Jin, K. X.; Wang, X.; Huang, C. M.; Fu, Y.; Ge, X. M.; Song, S. H.; Jeong, H. S.; Yanagisawa, H.; Niu, Y.; Jia, G. F.; Wu, W.; Tong, W. M.; Okamoto, A.; He, C.; Rendtlew Danielsen, J. M.; Wang, X. J.; Yang, Y. G. FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis. Cell Res. 2014, 24, 1403-1419. [pdf]

 

193.

Zhu, T.; Roundtree, I. A.; Wang, P.; Wang, X.; Wang, L.; Sun, C.; Tian, Y.; Li, J.; He, C.; Xu, Y. Crystal structure of the YTH domain of YTHDF2 reveals mechanism for recognition of N6-methyladenosine. Cell Res. 2014, 24, 1493-1496. [pdf]

 

192.

Odoh, S. O.; Bondarevsky, G. D.; Karpus, J.; Cui, Q.; He, C.; Spezia, R.; Gagliardi, L. UO Uptake by Proteins: Understanding the Binding Features of the Super Uranyl Binding Protein and Design of a Protein with Higher Affinity. J. Am. Chem. Soc. 2014. [ahead of print] [pdf]

 

191.

Zhao, B. S.; He, C. Pseudouridine in a new era of RNA modifications. Cell Res. 2014. [ahead of print] [pdf]

 

190.

Wang, X.; He, C. Dynamic RNA modifications in posttranscriptional regulation. Mol. Cell 2014, 56, 5-12. [pdf]

 

189.

Deng, X.; Liang, H.; Chen, K.; He, C.; Lan, L.; Tang, X. Molecular mechanisms of two-component system RhpRS regulating type III secretion system in Pseudomonas syringae. Nucleic Acids Res. 2015, 42, 11472-11486. [pdf]

 

188.

Hon, G. C.; Song, C. X.; Du, T.; Jin, F.; Selvaraj, S.; Lee, A. Y.; Yen, C. A.; Ye, Z.; Mao, S. Q.; Wang, B. A.; Kuan, S.; Edsall, L. E.; Zhao, B. S.; Xu, G. L.; He, C.; Ren, B. 5mC Oxidation by Tet2 Modulates Enhancer Activity and Timing of Transcriptome Reprogramming during Differentiation. Mol. Cell. 2014, 56, 286-297. [pdf]

 

187.

Xu, C.; Wang, X.; Liu, K.; Roundtree, I. A.; Tempel, W.; Li, Y.; Lu, Z.; He, C.; Min, J. Structural basis for selective binding of m(6)A RNA by the YTHDC1 YTH domain. Nat. Chem. Biol. 2014, 10, 927-929. [pdf]

 

186.

Nazor, K. L.; Boland, M. J.; Bibikova, M.; Klotzle, B.; Yu, M.; Glenn-Pratola, V. L.; Schell, J. P.; Coleman, R. L.; Cabral-da-Silva, M. C.; Schmidt, U.; Peterson, S. E.; He, C.; Loring, J. F.; Fan, J. B. Application of a low cost array-based technique - TAB-Array - for quantifying and mapping both 5mC and 5hmC at single base resolution in human pluripotent stem cells. Genomics 2014, 104, 358-367. [pdf]

 

185.

Cheng, Y.; Dai, Q.; Morshed, R. A.; Fan, X.; Wegscheid, M. L.; Wainwright, D. A.; Han, Y.; Zhang, L.; Auffinger, B.; Tobias, A. L.; Rincon, E.; Thaci, B.; Ahmed, A. U.; Warnke, P. C.; He, C.; Lesniak, M. S. Blood-Brain Barrier Permeable Gold Nanoparticles: An Efficient Delivery Platform for Enhanced Malignant Glioma Therapy and Imaging. Small 2014. [ahead of print] [pdf]

 

184.

Shan, C.; Elf, S.; Ji, Q.; Kang, H. B.; Zhou, L.; Hitosugi, T.; Jin, L.; Lin, R.; Zhang, L.; Seo, J. H.; Xie, J.; Tucker, M.; Gu, T. L.; Sudderth, J.; Jiang, L.; DeBerardinis, R. J.; Wu, S.; Li, Y.; Mao, H.; Chen, P. R.; Wang, D.; Chen, G. Z.; Lonial, S.; Arellano, M. L.; Khoury, H. J.; Khuri, F. R.; Lee, B. H.; Brat, D. J.; Ye, K.; Boggon, T. J.; He, C.; Kang, S.; Fan, J.; Chen, J. Lysine acetylation activates 6-phosphogluconate dehydrogenase to promote tumor growth. Mol. Cell 2014, 55, 552-565. [pdf]

 

183.

Zhao, L.; Sun, M. A.; Li, Z.; Bai, X.; Yu, M.; Wang, M.; Liang, L.; Shao, X.; Arnovitz, S.; Wang, Q.; He, C.; Lu, X.; Chen, J.; Xie, H. The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation. Genome Res. 2014, 24, 1296-1307. [pdf]

 

182.

Zheng, G.; Cox, T.; Tribbey, L.; Wang, G. Z.; Iacoban, P.; Booher, M. E.; Gabriel, G. J.; Zhou, L.; Bae, N.; Rowles, J.; He, C.; Olsen, M. J. Synthesis of a FTO inhibitor with anticonvulsant activity. ACS Chem. Neurosci. 2014, 5, 658-665. [pdf]

 

181.

Wen, L.; Li, X.; Yan, L.; Tan, Y.; Li, R.; Zhao, Y.; Wang, Y.; Xie, J.; Zhang, Y.; Song, C.; Yu, M.; Liu, X.; Zhu, P.; Hou, Y.; Guo, H.; Wu, X.; He, C.; Tang, F.; Qiao, J. Whole-genome analysis of 5-hydroxymethylcytosine and 5-methylcytosine at base resolution in the human brain. Genome Biol. 2014, 15, R49. [pdf]

 

180.

Yin, Y.; Yang, L.; Zheng, G.; Gu, C.; Yi, C.; He, C.; Gao, Y. Q.; Zhao, X. S. Dynamics of spontaneous flipping of a mismatched base in DNA duplex. Proc. Natl. Acad. Sci. 2014. [ahead of print] [pdf]

 

179.

Zhao, L.; Sun, M. A.; Li, Z.; Bai, X.; Yu, M.; Wang, M.; Liang, L.; Shao, X.; Arnovitz, S.; Wang, Q.; He, C.; Lu, X.; Chen, J.; Xie, H. The dynamics of DNA methylation fidelity during mouse embryonic stem cell self-renewal and differentiation. Genome Res.2014. [ahead of print] [pdf]

 

178.

Wang, X.; He, C. Reading RNA methylation codes through methyl-specific binding proteins. RNA Biol. 2014. [ahead of print] [pdf]

 

177.

Wang, L.; Zhang, J.; Duan, J.; Gao, X.; Zhu, W.; Lu, X.; Yang, L.; Li, G.; Ci, W.; Li, W.; Zhou, Q.; Aluru, N.; Tang, F.; He, C.; Huang, X.; Liu, J. Programming and inheritance of parental DNA methylomes in mammals. Cell 2014, 157, 979-991. [pdf]

 

176.

Deng, X.; Liang, H.; Ulanovskaya, O. A.; Ji, Q.; Zhou, T.; Sun, F.; Lu, Z.; Hutchison, A. L.; Lan, L.; Wu, M.; Cravatt, B. F.; He, C. Steady-state hydrogen peroxide induces glycolysis in Staphylococcus aureus and Pseudomonas aeruginosa. J. Bacteriol2014. [ahead of print] [pdf]

 

175.

Dominissini, D.; He, C. Cancer: Damage prevention targeted. Nature. 2014, 508, 191-192. [pdf]

 

174.

Fu, Y.; Dominissini, D.; Rechavi, G.; He, C. Gene expression regulation mediated through reversible m(6)A RNA methylation. Nat. Rev. Genet. 2014, 15, 293-306. [pdf]

 

173.

Zhang, L.; Chen, W.; Iyer, L. M.; Hu, J.; Wang, G.; Fu, Y.; Yu, M.; Dai, Q.; Aravind, L.; He, C. A TET Homologue Protein from Coprinopsis cinerea (CcTET) That Biochemically Converts 5-Methylcytosine to 5-Hydroxymethylcytosine, 5-Formylcytosine, and 5-Carboxylcytosine. J. Am. Chem. Soc. 2014, 136, 4801-4804. [pdf]

 

172.

Poor, C. B.; Wegner, S. V.; Li, H.; Dlouhy, A. C.; Schuermann, J. P.; Sanishvili, R.; Hinshaw, J. R.; Riggs-Gelasco, P. J.; Outten, C. E.; He, C. Molecular mechanism and structure of the Saccharomyces cerevisiae iron regulator Aft2. Proc. Natl. Acad. Sci. 2014, 111, 4043-4048. [pdf]

 

171.

Zheng, G.; Fu, Y.; He, C. Nucleic acid oxidation in DNA damage repair and epigenetics. Chem. Rev. 2014, 114, 4602-4620. [pdf]

 

170.

Chen, W.; Zhang, L.; Zheng, G.; Fu, Y.; Ji, Q.; Liu, F.; Chen, H.; He, C. Crystal structure of the RNA demethylase ALKBH5 from zebrafish. FEBS Lett. 2014, 588, 892-898. [pdf]

 

169.

Zhou, L.; Bosscher, M.; Zhang, C.; Ozcubukcu, S.; Zhang, L.; Zhang, W.; Li, C. J.; Liu, J.; Jensen, M. P.; Lai, L.; He, C. A protein engineered to bind uranyl selectively and with femtomolar affinity. Nat. Chem. 2014, 6, 236-241. [pdf][news][news]

 

168.

Madzo, J.; Liu, H.; Rodriguez, A.; Vasanthakumar, A.; Sundaravel, S.; Caces, D. B.; Looney, T. J.; Zhang, L.; Lepore, J. B.; Macrae, T.; Duszynski, R.; Shih, A. H.; Song, C. X.; Yu, M.; Yu, Y.; Grossman, R.; Raumann, B.; Verma, A.; He, C.; Levine, R. L.; Lavelle, D.; Lahn, B. T.; Wickrema, A.; Godley, L. A. Hydroxymethylation at Gene Regulatory Regions Directs Stem/Early Progenitor Cell Commitment during Erythropoiesis. Cell Rep.. 2014, 6, 231-244. [pdf]

 

167.

Liu, J.; Yue, Y.; Han, D.; Wang, X.; Fu, Y.; Zhang, L.; Jia, G.; Yu, M.; Lu, Z.; Deng, X.; Dai, Q.; Chen, W.; He, C. A METTL3-METTL14 complex mediates mammalian nuclear RNA N6-adenosine methylation. Nat. Chem. Biol. 2014, 10, 93-95. [pdf]

 

166.

Wang, X.; Lu, Z.; Gomez, A.; Hon, G. C.; Yue, Y.; Han, D.; Fu, Y.; Parisien, M.; Dai, Q.; Jia, G.; Ren, B.; Pan, T.; He, C. N6-methyladenosine-dependent regulation of messenger RNA stability. Nature. 2014, 505, 117-120. [pdf] [news]

 

165.

Hao, Z.; Lou, H.; Zhu, R.; Zhu, J.; Zhang, D.; Zhao, B. S.; Zeng, S.; Chen, X.; Chan, J.; He, C.; Chen, P. R. The multiple antibiotic resistance regulator MarR is a copper sensor in Escherichia coli. Nat. Chem. Biol. 2014, 10, 21-28. [ahead of print] [pdf]

 

2013
164.

Chen, C. C.; Xiao, S.; Xie, D.; Cao, X.; Song, C. X.; Wang, T.; He, C.; Zhong, S. Understanding variation in transcription factor binding by modeling transcription factor genome-epigenome interactions. PLoS Comput. Biol.. 2013, 9, e1003367. [pdf]

 

163.

Zhao, B. S.; Zhang, G.; Zeng, S.; He, C.; Chen, P. R. Probing subcellular organic hydroperoxide formation via a genetically encoded ratiometric and reversible fluorescent indicator. Integrative Biology. 2013, 5, 1485-1489. [pdf]

 

162.

Liu, N.; Parisien, M.; Dai, Q.; Zheng, G.; He, C.; Pan, T. Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA. RNA. 2013, 19, 1848-1856. [pdf]

 

161.

Song, C. X.; He, C. Trends Biochem. Sci. Potential functional roles of DNA demethylation intermediates. 2013, 38, 480-484. [pdf]

 

160.

Ji, Q.; Zhao, B. S.; He, C. A highly sensitive and genetically encoded fluorescent reporter for ratiometric monitoring of quinones in living cells. Chem. Commun. 2013, 49, 8027-8029. [pdf]

 

159.

Lister, R.; Mukamel, E. A.; Nery, J. R.; Urich, M.; Puddifoot, C. A.; Johnson, N. D.; Lucero, J.; Huang, Y.; Dwork, A. J.; Schultz, M. D.; Yu, M.; Tonti-Filippini, J.; Heyn, H.; Hu, S.; Wu, J. C.; Rao, A.; Esteller, M.; He, C.; Haghighi, F. G.; Sejnowski, T. J.; Behrens, M. M.; Ecker, J. R. Global epigenomic reconfiguration during mammalian brain development. Science. 2013, 341, 1237905. [pdf]

 

158.

Huang, H.; Jiang, X.; Li, Z.; Li, Y.; Song, C. X.; He, C.; Sun, M.; Chen, P.; Gurbuxani, S.; Wang, J.; Hong, G. M.; Elkahloun, A. G.; Arnovitz, S.; Szulwach, K.; Lin, L.; Street, C.; Wunderlich, M.; Dawlaty, M.; Neilly, M. B.; Jaenisch, R.; Yang, F. C.; Mulloy, J. C.; Jin, P.; Liu, P. P.; Rowley, J. D.; Xu, M.; Chen, J. TET1 plays an essential oncogenic role in MLL-rearranged leukemia. Proc. Natl. Acad. Sci. 2013, 110, 11994-11999. [pdf]

 

157.

Gan, H.; Wen, L.; Liao, S.; Lin, X.; Ma, T.; Liu, J.; Song, C. X.; Wang, M.; He, C.; Han, C.; Tang, F. Dynamics of 5-hydroxymethylcytosine during mouse spermatogenesis. Nat. Commun. 2013, 4, 1995. [pdf]

 

156.

Lu, X.; Song, C. X.; Szulwach, K.; Wang, Z.; Weidenbacher, P.; Jin, P.; He, C. Chemical modification-assisted bisulfite sequencing (CAB-Seq) for 5-carboxylcytosine detection in DNA. J. Am. Chem. Soc. 2013, 135, 9315-9317. [pdf]

 

155.

Sun, M.; Song, C. X.; Huang, H.; Frankenberger, C. A.; Sankarasharma, D.; Gomes, S.; Chen, P.; Chen, J.; Chada, K. K.; He, C.; Rosner, M. R. HMGA2/TET1/HOXA9 signaling pathway regulates breast cancer growth and metastasis. Proc. Natl. Acad. Sci. 2013, 110, 9920-9925. [pdf]

 

154.

Wang, T.; Wu, H.; Li, Y.; Szulwach, K. E.; Lin, L.; Li, X.; Chen, I. P.; Goldlust, I. S.; Chamberlain, S. J.; Dodd, A.; Gong, H.; Ananiev, G.; Han, J. W.; Yoon, Y. S.; Katharine Rudd, M.; Yu, M.; Song, C. X.; He, C.; Chang, Q.; Warren, S. T.; Jin, P. Subtelomeric hotspots of aberrant 5-hydroxymethylcytosine-mediated epigenetic modifications during reprogramming to pluripotency. Nat. Cell. Biol. 2013, 15, 700-711. [pdf]

 

153.

Li, M. M.; Nilsen, A.; Shi, Y.; Fusser, M.; Ding, Y. H.; Fu, Y.; Liu, B.; Niu, Y.; Wu, Y. S.; Huang, C. M.; Olofsson, M.; Jin, K. X.; Lv, Y.; Xu, X. Z.; He, C.; Dong, M. Q.; Rendtlew Danielsen, J. M.; Klungland, A.; Yang, Y. G. ALKBH4-dependent demethylation of actin regulates actomyosin dynamics. Nat. Commun. 2013, 4, 1832. [pdf]

 

152.

Jiang, L.; Zhang, J.; Wang, J. J.; Wang, L.; Zhang, L.; Li, G.; Yang, X.; Ma, X.; Sun, X.; Cai, J.; Huang, X.; Yu, M.; Wang, X.; Liu, F.; Wu, C. I.; He, C.; Zhang, B.; Ci, W.; Liu, J. Sperm, but not oocyte, DNA methylome is inherited by zebrafish early embryos. Cell, 2013, 153, 773-784. [pdf]

 

151.

Hitosugi, T.; Zhou, L.; Fan, J.; Elf, S.; Zhang, L.; Xie, J.; Wang, Y.; Gu, T. L.; Aleckovic, M.; Leroy, G.; Kang, Y.; Kang, H. B.; Seo, J. H.; Shan, C.; Jin, P.; Gong, W.; Lonial, S.; Arellano, M. L.; Khoury, H. J.; Chen, G. Z.; Shin, D. M.; Khuri, F. R.; Boggon, T. J.; Kang, S.; He, C.; Chen, J. Tyr26 phosphorylation of PGAM1 provides a metabolic advantage to tumours by stabilizing the active conformation. Nat. Commun. 2013, 4, 1790. [pdf]

 

150.

Fu, Y.; Jia, G.; Pang, X.; Wang, R. N.; Wang, X.; Li, C. J.; Smemo, S.; Dai, Q.; Bailey, K. A.; Nobrega, M. A.; Han, K.-L.; Cui, Q.; He, C. FTO-mediated formation of N6-hydroxymethyladenosine and N6-formyladenosine in mammalian RNA. Nat. Commun. 2013, 4, 1798. [pdf]

 

149.

Zheng, G.; Dahl, J. A.; Niu, Y.; Fu, Y.; Klungland, A.; Yang, Y. G.; He, C. Sprouts of RNA epigenetics: The discovery of mammalian RNA demethylases. RNA Biol. 2013, 10. [pdf]

 

148.

Song, C. X.; Szulwach, K. E.; Dai, Q.; Fu, Y.; Mao, S. Q.; Lin, L.; Street, C.; Li, Y.; Poidevin, M.; Wu, H.; Gao, J.; Liu, P.; Li, L.; Xu, G. L.; Jin, P.*; He, C.* Genome-wide Profiling of 5-Formylcytosine Reveals Its Roles in Epigenetic Priming. Cell. 2013, 153, 678-691. [pdf] [cover]

 

147.

Deng, X.; Weerapana, E.; Ulanovskaya, O.; Sun, F.; Liang, H.; Ji, Q.; Ye, Y.; Fu, Y.; Zhou, L.; Li, J.; Zhang, H.; Wang, C.; Alvarez, S.; Hicks, L. M.; Lan, L.; Wu, M.; Cravatt, B. F.*; He, C.* Proteome-wide Quantification and Characterization of Oxidation-Sensitive Cysteines in Pathogenic Bacteria. Cell Host Microbe. 2013, 13, 358-370. [pdf]

 

146.

Ji, Q.; Zhang, L.; Jones, M. B.; Sun, F.; Deng, X.; Liang, H.; Cho, H.; Brugarolas, P.; Gao, Y. N.; Peterson, S. N.; Lan, L.; Bae, T.; He, C. Molecular mechanism of quinone signaling mediated through S-quinonization of a YodB family repressor QsrR. Proc. Natl. Acad. Sci. 2013, 110, 5010-5015.[pdf]

 

145.

Zhang, L.; Szulwach, K. E.; Hon, G. C.; Song, C. X.; Park, B.; Yu, M.; Lu, X.; Dai, Q.; Wang, X.; Street, C. R.; Tan, H.; Min, J. H.; Ren, B.; Jin, P.; He, C. Tet-mediated covalent labelling of 5-methylcytosine for its genome-wide detection and sequencing. Nat. Commun. 2013, 4, 1517. [pdf]

 

144.

Liu, J.; Karpus, J.; Wegner, S. V.; Chen, P. R.; He, C. Genetically Encoded Copper(I) Reporters with Improved Response for Use in Imaging. J. Am. Chem. Soc. 2013.135, 3144-3149 [pdf]

 

143.

Liang, H.; Deng, X.; Bosscher, M.; Ji, Q.; Jensen, M. P.; He, C. Engineering Bacterial Two-Component System PmrA/PmrB to Sense Lanthanide Ions. J. Am. Chem. Soc. 2013, 135, 2037-2039.[pdf][news]

 

142.

Clark, T. A.; Lu, X.; Luong, K.; Dai, Q.; Boitano, M.; Turner, S. W.; He, C.; Korlach, J. Enhanced 5-methylcytosine detection in single-molecule, real-time sequencing via Tet1 oxidation. BMC. Biol. 2013, 11, 4.[pdf]

 

141.

Yi, C.; He, C. DNA repair by reversal of DNA damage. Cold Spring Harb Perspect Biol. 2013, 5, a012575.[pdf]

 

140.

Zheng, G.; Dahl, J. A.; Niu, Y.; Fedorcsak, P.; Huang, C.-M.; Li, Charles J.; Vågbø, Cathrine B.; Shi, Y.; Wang, W.-L.; Song, S.-H.; Lu, Z.; Bosmans, Ralph P. G.; Dai, Q.; Hao, Y.-J.; Yang, X.; Zhao, W.-M.; Tong, W.-M.; Wang, X.-J.; Bogdan, F.; Furu, K.; Fu, Y.; Jia, G.; Zhao, X.; Liu, J.; Krokan, Hans E.; Klungland, A.*; Yang, Y.-G.*; He, C.* ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility. Mol. Cell. 2013, 18-29.[pdf][news]

 

139. Yu, P.; Xiao, S.; Xin, X.; Song, C. X.; Huang, W.; McDee, D.; Tanaka, T.; Wang, T.; He, C.; Zhong, S. Spatiotemporal clustering of epigenome reveals rules of dynamic gene regulation. Genome. Res. 2012, 23, 352-364. [pdf]
2012
138.

Jia, G.; Fu, Y.; He, C. Reversible RNA adenosine methylation in biological regulation. Trends in Genetics. 2012, 29, 108-115.[pdf]

 

137.

Yu, M.; Hon, G. C.; Szulwach, K. E.; Song, C. X.; Jin, P.; Ren, B.; He, C. Tet-assisted bisulfite sequencing of 5-hydroxymethylcytosine. Nat. Protoc. 2012, 7, 2159-2170.[pdf]

 

136.

Hitosugi, T.; Zhou, L.; Elf, S.; Fan, J.; Kang, H.-B.; Seo, Jae H.; Shan, C.; Dai, Q.; Zhang, L.; Xie, J.; Gu, T.-L.; Jin, P.; Ale kovi, M.; LeRoy, G.; Kang, Y.; Sudderth, Jessica A.; DeBerardinis, Ralph J.; Luan, C.-H.; Chen, Georgia Z.; Muller, S.; Shin, Dong M.; Owonikoko, Taofeek K.; Lonial, S.; Arellano, Martha L.; Khoury, Hanna J.; Khuri, Fadlo R.; Lee, Benjamin H.; Ye, K.; Boggon, Titus J.; Kang, S.; He, C.*; Chen, J.* Phosphoglycerate Mutase 1 Coordinates Glycolysis and Biosynthesis to Promote Tumor Growth. Cancer Cell. 2012, 22, 585-600.[pdf]

 

135.

Song, C. X.; Yi, C.; He, C. Mapping recently identified nucleotide variants in the genome and transcriptome. Nat. Biotechnol. 2012, 30, 1107-1116.[pdf]

 

134.

Zhang, L.; Yu, M.; He, C. Mouse Tet1 Protein can Oxidize 5mC to 5hmC and 5caC on Single-stranded DNA. Acta. Chim. Sinica. 2012, 70, 2123-2126.[pdf]

 

133.

Fu, Y.; He, C. Nucleic acid modifications with epigenetic significance. Current Opinion in Chemical Biology.2012, 516-524.[pdf]

 

132.

Song, C. X.; He, C. Balance of DNA methylation and demethylation in cancer development. Genome. Biol. 2012, 13, 173.[pdf]

 

131.

Jiang, X.; Huang, H.; Li, Z.; Li, Y.; Wang, X.; Gurbuxani, S.; Chen, P.; He, C.; You, D.; Zhang, S.; Wang, J.; Arnovitz, S.; Elkahloun, A.; Price, C.; Hong, G. M.; Ren, H.; Kunjamma, R. B.; Neilly, M. B.; Matthews, J. M.; Xu, M.; Larson, R. A.; Le Beau, M. M.; Slany, R. K.; Liu, P. P.; Lu, J.; Zhang, J.; He, C.; Chen, J. Blockade of miR-150 Maturation by MLL-Fusion/MYC/LIN-28 Is Required for MLL-Associated Leukemia. Cancer Cell. 2012, 22, 524-535.[pdf]

 

130.

Li, Y.; Song, C. X.; He, C.; Jin, P. Selective Capture of 5-hydroxymethylcytosine from Genomic DNA. J. Vis. Exp. 2012, 68, e4441. [pdf]

 

129.

Wang, T.; Pan, Q.; Lin, L.; Szulwach, K. E.; Song, C. X.; He, C.; Wu, H.; Warren, S. T.; Jin, P.; Duan, R.; Li, X. Genome-wide DNA hydroxymethylation changes are associated with neurodevelopmental genes in the developing human cerebellum. Hum. Mol. Genet. 2012, 5500-5510.[pdf]

 

128.

Brugarolas, P.; Movahedzadeh, F.; Wang, Y.; Zhang, N.; Bartek, I. L.; Gao, Y. N.; Voskuil, M. I.; Franzblau, S. G.; He, C. The oxidation-sensing regulator (MosR) is a new redox dependent transcription factor in Mycobacterium tuberculosis. J. Biol. Chem. 2012, 37703-37712.[pdf]

 

127.

Wang, J.; Karpus, J.; Zhao, B. S.; Luo, Z.; Chen, P. R.; He, C. A selective fluorescent probe for carbon monoxide imaging in living cells. Angew. Chem. Int. Ed. 2012, 51, 9652-9656.[pdf]

 

126.

Sun, F.; Ding, Y.; Ji, Q.; Liang, Z.; Deng, X.; Wong, C. C.; Yi, C.; Zhang, L.; Xie, S.; Alvarez, S.; Hicks, L. M.; Luo, C.; Jiang, H.; Lan, L.; He, C. Protein cysteine phosphorylation of SarA/MgrA family transcriptional regulators mediates bacterial virulence and antibiotic resistance. Proc. Natl. Acad. Sci. 2012, 109, 15461-15466.[pdf]

 

125.

Jeong, D. W.; Cho, H.; Jones, M. B.; Shatzkes, K.; Sun, F.; Ji, Q.; Liu, Q.; Peterson, S. N.; He, C.; Bae, T. The auxiliary protein complex SaePQ activates the phosphatase activity of sensor kinase SaeS in the SaeRS two-component system of Staphylococcus aureus. Mol. Microbiol. 2012, 86, 331-348.[pdf]

 

124.

Jiao, Z. W.; Zhang, S. Y.; He, C.; Tu, Y. Q.; Wang, S. H.; Zhang, F. M.; Zhang, Y. Q.; Li, H. Organocatalytic Asymmetric Direct Csp3-H Functionalization of Ethers: A Highly Efficient Approach to Chiral Spiroethers. Angew. Chem. Int. Ed. 2012, 51, 8811-8815.[pdf]

 

123.

Kellinger, M. W.; Song, C. X.; Chong, J.; Lu, X. Y.; He, C.; Wang, D. 5-formylcytosine and 5-carboxylcytosine reduce the rate and substrate specificity of RNA polymerase II transcription. Nat. Struct. Mol. Biol. 2012, 19, 831-833. [pdf]

 

122.

Yin, Y.; Wang, P.; Yang, X. X.; Li, X.; He, C.; Zhao, X. S. Panorama of DNA hairpin folding observed via diffusion-decelerated fluorescence correlation spectroscopy. Chem. Commun. 2012, 48, 7413-7415. [pdf]

 

121.

Dai, Q.; Lu, X.; Zhang, L.; He, C. Synthesis of DNA oligos containing 2'-deoxy-2'-fluoro-D-arabinofuranosyl-5-carboxylcytosine as hTDG inhibitor. Tetrahedron. 2012, 68, 5145-5151. [pdf]

 

120.

Yi, C.; Chen, B.; Qi, B.; Zhang, W.; Jia, G.; Zhang, L.; Li, C. J.; Dinner, A. R.; Yang, C. G.*; He, C.* Duplex interrogation by a direct DNA repair protein in search of base damage. Nat. Struct. Mol. Biol. 2012, 19, 671-676. [pdf] [cover]

 

119.

Li, Y.; Lin, L.; Li, Z.; Ye, X.; Xiong, K.; Aryal, B.; Xu, Z.; Paroo, Z.; Liu, Q.; He, C.; Jin, P. Iron Homeostasis Regulates the Activity of the MicroRNA Pathway through Poly(C)-Binding Protein 2. Cell. Metab. 2012, 15, 895-904. [pdf]

 

118.

Hendrickx, A. P.; Poor, C. B.; Jureller, J. E.; Budzik, J. M.; He, C.; Schneewind, O. Isopeptide bonds of the major pilin protein BcpA influence pilus structure and bundle formation on the surface of Bacillus cereus. Mol. Microbiol. 2012, 85, 153-163. [pdf]

 

117.

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Liang, H.; Deng, X.; Ji, Q.; Sun, F.; Shen, T.; He, C. Pseudomonas aeruginosa global regulator VqsR directly inhibits QscR to control quorum-sensing and virulence gene expression. J. Bacteriol. 2012, 287, 21102-21109. [pdf]

 

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Yao, Q.; Song, C. X.; He, C.; Kumaran, D.; Dunn, J. J. Heterologous expression and purification of Arabidopsis thaliana VIM1 protein: In vitro evidence for its inability to recognize hydroxymethylcytosine, a rare base in Arabidopsis DNA. Protein Expr Purif 2012, 83, 104-111. [pdf]

 

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Sun, F.; Ji, Q.; Jones, M. B.; Deng, X.; Liang, H.; Frank, B.; Telser, J.; Peterson, S. N.; Bae, T.; He, C. AirSR, a [2Fe-2S] Cluster-Containing Two-Component System, Mediates Global Oxygen Sensing and Redox Signaling in Staphylococcus aureus. J. Am. Chem. Soc. 2012, 134, 305-314. [pdf]

 

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Szulwach, K. E.; Li, X.; Li, Y.; Song, C. X.; Wu, H.; Dai, Q.; Irier, H.; Upadhyay, A. K.; Gearing, M.; Levey, A. I.; Vasanthakumar, A.; Godley, L. A.; Chang, Q.; Cheng, X.; He, C.; Jin, P. 5-hmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging. Nat. Neurosci. 2011. 14, 1607-1616. [pdf]

 

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Jia, G.; Fu, Y.; Zhao, X.; Dai, Q.; Zheng, G.; Yang, Y.; Yi, C.; Lindahl, T.; Pan, T.; Yang, Y. G.*; He, C.* N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO. Nat. Chem. Biol. 2011, 7, 885-887.[pdf] [news]

 

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Sun, F.; Zhou, L.; Zhao, B. C.; Deng, X.; Cho, H.; Yi, C.; Jian, X.; Song, C. X.; Luan, C. H.; Bae, T.; Li, Z.; He, C. Targeting MgrA-mediated virulence regulation in Staphylococcus aureus. Chem. Biol. 2011, 18, 1032-1041.[pdf]

 

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Aryal, B. P.; Brugarolas, P.; He, C. Binding of ReO(4) (-) with an engineered MoO (4) (2-)-binding protein: towards a new approach in radiopharmaceutical applications. J. Biol. Inorg. Chem. 2011, 17, 97-106 . [pdf]

 

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He, Y. F.; Li, B. Z.; Li, Z.; Liu, P.; Wang, Y.; Tang, Q.; Ding, J.; Jia, Y.; Chen, Z.; Li, L.; Sun, Y.; Li, X.; Dai, Q.; Song, C. X.; Zhang, K.; He, C.; Xu, G. L. Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA. Science 2011, 333, 1303-1307.[pdf]

 

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Brugarolas, P.; Duguid, E. M.; Zhang, W.; Poor, C. B.; He, C. Structural and biochemical characterization of N5-carboxyaminoimidazole ribonucleotide synthetase and N5-carboxyaminoimidazole ribonucleotide mutase from Staphylococcus aureus. Acta Crystallogr. D Biol. Crystallogr. 2011, 67, 707-715.[pdf]

 

95.

Ito, S.; Shen, L.; Dai, Q.; Wu, S. C.; Collins, L. B.; Swenberg, J. A.; He, C.; Zhang, Y. Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine. Science 2011, 333, 1300-1303. [pdf]

 

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Szulwach, K. E.; Li, X.; Li, Y.; Song, C. X.; Han, J. W.; Kim, S.; Namburi, S.; Hermetz, K.; Kim, J. J.; Rudd, M. K.; Yoon, Y. S.; Ren, B.; He, C.; Jin, P. Integrating 5-hydroxymethylcytosine into the epigenomic landscape of human embryonic stem cells. PLoS Genet. 2011, 7, e1002154.[pdf]

 

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Moran-Crusio, K.; Reavie, L.; Shih, A.; Abdel-Wahab, O.; Ndiaye-Lobry, D.; Lobry, C.; Figueroa, M. E.; Vasanthakumar, A.; Patel, J.; Zhao, X.; Perna, F.; Pandey, S.; Madzo, J.; Song, C.; Dai, Q.; He, C.; Ibrahim, S.; Beran, M.; Zavadil, J.; Nimer, S. D.; Melnick, A.; Godley, L. A.; Aifantis, I.; Levine, R. L. Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation. Cancer Cell 2011, 20, 11-24.[pdf]

 

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Song, C. X.; Sun, Y.; Dai, Q.; Lu, X. Y.; Yu, M.; Yang, C. G.; He, C. Detection of 5-hydroxymethylcytosine in DNA by transferring a keto-glucose by using T4 phage beta-glucosyltransferase. ChemBioChem 2011, 12, 1682-1685.[pdf]

 

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Dai, Q.; He, C. Syntheses of 5-formyl- and 5-carboxyl-dC containing DNA oligos as potential oxidation products of 5-hydroxymethylcytosine in DNA. Org. Lett. 2011, 13, 3446-3449.[pdf]

 

90.

Dolan, K. T.; Duguid, E. M.; He, C. Crystal structures of SlyA protein, a master virulence regulator of Salmonella, in free and DNA-bound states. J. Biol. Chem. 2011, 286, 22178-22185.[pdf]

 

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Song, C. X.; He, C. Bioorthogonal labeling of 5-hydroxymethylcytosine in genomic DNA and diazirine-based DNA photo-cross-linking probes. Acc. Chem. Res. 2011, 44, 709-717.[pdf]

 

88.

Song, C. X.; Yu, M.; Dai, Q.; He, C. Detection of 5-hydroxymethylcytosine in a combined glycosylation restriction analysis (CGRA) using restriction enzyme Taq(alpha)I. Bioorg. Med. Chem. Lett. 2011, 21, 5075-5077.[pdf]

 

87.

Dai, Q.; Song, C. X.; Pan, T.; He, C. Syntheses of two 5-hydroxymethyl-2'-deoxycytidine phosphoramidites with TBDMS as the 5-hydroxymethyl protecting group and their incorporation into DNA. J. Org. Chem. 2011, 76, 4182-4188.[pdf]

 

86.

Wegner, S.V.; Sun, F.; Hernandez, N.; He, C.; "The tightly regulated copper window in yeast." Chem. Commun. 2011, 47, 2571-2573. [pdf]

85.

Song, C.X.; Szulwach, K.E.; Fu, Y.; Dia, Q.; Yi, C.; Li, X.; Li, Y.; Chen, C.-H.; Zhang, W.; Jian, X.; Wang, J.; Zhang, L.; Looney, T.J.; Zhang, B.; Godley, L.A.; Hicks, L.M.; Lahn, B.T.; Jin, P.*; He, C.* "Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine" Nat. Biotechnol. 201129, 68-72. [pdf]

84.

Wegner, S. V.; Ertem, E.; Sunbul, M.; He, C.; "Metal-binding properties of Hpn from Helicobacter pylori and implications for the therapeutic activity of bismuth" Chem. Sci. 2011, Advance Article.[pdf]

2010
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Sun, F.; Cho, H.; Jeong, D.W.; Li, C.; He, C.; Bae, T.; "Aureusimines in Staphylococcus aureus are not involved in virulence." PLoS One 2010, 5, e15703 [pdf]

82.

Yi, C.; Jia, G; Hou, G.; Dai, Q.; Zhang, W.; Zheng, G.; Jian, X.; Yang, C.-G.; Cui, Q.; He, C.; "Iron-catalysed oxidation intermediates captured in a DNA repair dioxygenase" Nature 2010, 468, 330-333.[pdf]

81. He, C.; "Grand Challenge Commentary: RNA epigenetics?" Nat. Chem. Bio. 2010, 6, 863-865.[pdf]

80.

Chen, H.; Yi, C.; Zhang, J.; Zhang, W.; Ge, Z.; Yang, C.-G.; He, C.; "Structural insight into the oxidation sensing mechanism of the antibiotic resistance regulator MexR" EMBO Rep. 2010, 11, 685-690. [pdf]

79.

Li, C.; Sun, F.; Cho, H.; Yelavarthi, V.; Sohn, C.; He, C.; Schneewind, O.; Bae, T.; "CcpA mediates proline auxotrophy and is required for the pathogenesis of Staphylococcus aureus infections" J. Bacteriol. 2010, 3883-3892. [pdf]

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Chen, P.R.; Brugarolas, P.; He, C; "Redox Signaling in Human Pathogens" Antioxid. Redox Signal. 2010, 107-1118. [pdf]

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Li, Y.; He. C.*; Jin, P.*; "Emergence of Chemical Biology Approaches to the RNAi/miRNA Pathway" Chem. Biol. 2010, 17, 584-589. [pdf]

76.

Fu, Y.; Dai, Q.; Zhang, W.; Ren, J.; Pan, T.; He, C.; "The AlkB Domain of Mammalian ABH8 Catalyzes Hydroxylation of 5-Methoxycarbonylmethyluridine at the Wobble Position of tRNA" Angew. Chem. Intl. Ed. 2010, 49, 8885-8888. [pdf]

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Saikia, M.; Fu, Y.; Pavon-Eternod, M.; He, C.; Pan, T.; "Genome-wide Analysis of N1-methyl-adenosine Modification in Human tRNAs" RNA 2010, 1317-1327. [pdf]

74. Lan, L.; Cheng, A.; Dunman, P.M.; Missiakas, D; He, C.; "Golden Pigment Production and Virulence Gene Expression are Affected by Metabolisms in Staphylococcus aureus" J. Bacteriol. 2010, 192, 3068-3077. [pdf]

73.

Lu, L.; Yi, C.; Jian, X.; Zheng, G.; He, C.; "Structure determination of DNA methylation lesions N1-meA and N3-meC in duplex DNA using a cross-linked protein-DNA system." Nucleic Acids Res. 2010, 4415-4425. [pdf]

72.

Sun, F.; Li, C.; Jeong, D.; Sohn, C.; He, C.; Bae, T. "In the Staphylococcus aureus two component system sae, the response regulator SaeR binds to a direct repeat sequence and the DNA binding requires phosphorylation by the sensor kinase SaeS" J. Bacteriol. 2010, 192, 2111-2127. [pdf]

71.

Wegner, S.; Arslan, H.; Sunbul, M.; Yin, J; He, C. "Dynamic Copper(I) Imaging in Mammalian Cells with a Genetically Encoded Fluorescent Copper(I) Sensor" J. Am. Chem. Soc. 2010, , 132 , 2567-2569. [pdf]

70.

Lan, L.; Murray, T.S.; Kazmierczak, B.I.; He, C. "Pseudomonas aeruginosa OspR is an oxidative stress sensing regulator that affects pigment production, antibiotic resistance and dissemination during infection" Mol. Microbiol. 2010, 75, 76-91. [pdf]

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Yi, C. and He, C. "AlkB recognition of a bulky DNA base adduct stabilized by chemical cross-linking" Sci. China. Chem. 2010, 53, 86.

2009
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Budzik, J.M.; Poor, C.B.; Faull, K.F.; Whitelegge, J.P.; He, C.*; Schneewind, O.* "Intermolecular amide bonds stabilize pili on the surface of bacilli" Proc. Natl. Acad. Sci 2009, 106, 19992-19997. [pdf]

67. Jian, X.; Wasinger, E.C.; Lockard, J.V.; Chen, L.X.; He, C. " Highly Sensitive and Selective Gold(I) Recognition by a Metalloregulator in Ralstonia metallidurans" J. Am. Chem. Soc. 2009, 131, 10869-10871. [pdf]

66.

Poor, C.B.; Chen, P.R.; Duguid, E.; Rice, P.A.; He, C. " Crystal structures of the reduced, sulfenic acid and mixed disulfide forms of sarz, a redox active global regulator in staphylococcus aureus" J. Biol. Chem. 2009, 284, 23517-23524. [pdf]

65.

Lin, Y.; Zhao, T.; Jian, X.; Farooqui, Z.; Qu, X.; He, C.; Dinner, A. R.; Scherer, N.F. "Using the Bias from Flow to Elucidate Single DNA Repair Protein Sliding and Interactions with DNA" Biophys. J. 2009, 96, 1911-1917. [pdf]

64.
Yang, S.; Li, Z.; Jian, X; He, C. "Platinum(II)-Catalyzed Intramolecular Cyclization of o-Substituted Arylalkynes through sp3 C-H Activation" Angew. Chem. Intl. Ed. 2009, 48, 3999-4001. [pdf]

63.

Wegner, S.V.; Boyaci, H.; Chen, H.; Jensen, M.P.; He, C. "Engineering a Uranyl-Specific Binding Protein from NikR" Angew. Chem. Intl. Ed. 2009, 48, 2339-2341. [pdf] [press]

62. Yi, C.; Yang, C.-G.; He, C. "A Non-Heme Iron-Mediated Chemical Demethylation in DNA and RNA" Acc. Chem. Res. 2009, 42, 519-529. [pdf]
 
61. Yang, C.-G.; Garcia, K.; He, C. "Damage Detection and Base Flipping in Direct DNA Alkylation Repair" ChemBioChem 2009, 10, 417-423. [pdf]
 
60. Richter, S; Anderson, V.J.; Garufi, G.; Lu, L.; Budzik, J. M.; Joachimiak, A.; He, C.; Schneewind, O.; Missiakas, D. "Capsule anchoring in Bacillus anthracis occurs by a transpeptidation reaction that is inhibited by capsidin" Mol. Microbiol. 2009, 71, 404-420. [pdf]
 
59. Chen, P.R.; Nishida, S.; Poor, C.B.; Cheng, A.; Bae, T.; Kuechenmeister, L.; Dunman, P.M.; Missiakas, D.; He, C. "A new oxidative sensing and regulation pathway mediated by the MgrA homologue SarZ in Staphylococcus aureus" Mol. Microbiol. 2009, 71, 198-211. [pdf]
 
2008
58. Shigdel, U.K. and He, C. "A New 1'-Methylenedisulfide Deoxyribose that Forms an Efficient Cross-Link to DNA Cytosine-5 Methyltransferase (DNMT) J. Am. Chem. Soc. 2008, 130, 17634-17635. [pdf]
 
57. Qiu, Z.; Lu, L.; Jian, X.; He, C. "A Diazirine-Based Nucleoside Analogue for Efficient DNA Interstrand Photocross-Linking" J. Am. Chem. Soc. 2008, 130, 14398-14399. [pdf]
 
56. Jia, G.; Yang, C.-G.; Yang, S.; Jian, X.; Yi, C.; Zhou, Z.; He, C. "Oxidative demethylation of 3-methylthymine and 3-methyluracil in single-stranded DNA and RNA by mouse and human FTO" FEBS Letters 2008, 582, 3313-3319. [pdf]
 
55. Chen, H.; Hu, J.; Chen, P.R.; Lan, L.; Li, Z.; Hicks, L.M.; Dinner, A.R; He, C. "The Pseudomonas aeruginosa multidrug efflux regulator MexR uses an oxidation-sensing mechanism" Proc. Natl. Acad. Sci. 2008, 105, 13586-13591. [pdf]
 
54. Li, X.; Ye, S.; He, C.; Yu, Z.-X. "Mechanisms of Brønsted Acid Catalyzed Additions of Phenols and Protected Amines to Olefins: A DFT Study" Eur. J. Org. Chem. 2008, 25, 4296-4303. [pdf]
 
53. Shan, G.; Li, Y.; Zhang, J.; Li, W.; Szulwach, K.E.; Duan, R.; Faghihi, M.A.; Khalil, A.M.; Lu, L.; Paroo, Z.; Chan, A.W.S.; Shi, Z.; Liu, Q.; Wahlestedt, C.; He, C.; Jin, P. "A small molecule enhances RNA interference and promotes microRNA processing"  Nature Biotechnology 2008, 26, 933-940. [pdf] [C&EN]
 
52. Li, Z.; Brouwer, C.; He, C. "Gold-Catalyzed Organic Transformations" Chem. Rev. 2008, 108, 3239-3265. [pdf] Submitted for publication in the special issue: Coinage Metals in Organic Synthesis
 
51. Yang, C.-G.; Yi, C.; Duguid, E. M.; Sullivan, C. T.; Jian, X.; Rice, P. A.; He, C. "Crystal structures of DNA-RNA repair enzymes AlkB and ABH2 bound to dsDNA" Nature 2008, 452, 961-965. [pdf] [U. Chicago Press] [C&EN] [AAAS] [Argonne Lab Press] (For additional news links, go to "Research Highlights"
 
50.  Chen, P.R. and He, C.  "Selective recognition of metal ions by metalloregulatory proteins" Curr. Opin. Chem. Biol. 2008, 12, 214-221. [pdf]
 
49.  Chang, S.; Bray, S.M.; Li, Z.; Zarnescu, D.C.; He, C.; Jin, P.; Warren, S.T.  "Identification of small molecules rescuing fragile X syndrome phenotypes in Drosophila" Nat. Chem. Biol. 2008,  4, 256-263. [pdf]
 
48.  Shigdel, U. K.; Zhang, J.; He, C. "Diazirine-Based DNA Photo-Cross-Linking Probes for the Study of Protein-DNA Interactions" Angew. Chem. Intl. Ed. 2008, 47, 90-93. [pdf]
 
47.  Chen, C.-S.; Korobkova, E.; Chen, H.; Zhu, J.; Jian, X.; Tao, S.-C.; He, C.*; Zhu, H.* "A proteome chip approach reveals new DNA damage recognition activities in Escherichia Coli" Nat. Methods, 2008, 5, 69-74. [pdf] [J. Proteome Res. press]
 
2007
46.  Durek, T.; Zhang, J.; He, C.; Kent, S.B.H. "Synthesis of Photoactive Analogues of a Cysteine Knot Trypsin Inhibitor Protein" Org. Lett. 2007, 9, 5497-5500.   [pdf]
 
45. Sarkar, S.K.; Andoy, N.M.; Benitez, J.J.; Chen, P.R.; Kong, J.S.; He, C.; Chen, P. "Engineered Holliday Junctions as Single-Molecule Reporters for Protein-DNA Interactions with Application to a MerR-Family Regulator" J. Am. Chem. Soc. 2007, 129, 12461-12467.  [pdf]
 
44. Chen, P.R.; Wasinger, E. C.; Zhao, J.; van der Lelie, D.; Chen, L.X. ; He, C. "Spectroscopic Insights into Lead(II) Coordination by the Selective Lead(II)-Binding Protein PbrR691" J. Am. Chem. Soc. 2007, 129, 12350-12351. [pdf]
 
43. Li, Z.; Capretto, D.A.; Rahaman, R.O.; He, C. "Gold(III)-Catalyzed Nitrene Insertion into Aromatic and Benzylic C-H Groups" J. Am. Chem. Soc.  2007, 129, 12058-12059. [pdf]
 
42. Brouwer, C.; Rahaman, R O..; He, C. "Gold(I)-Mediated Hydrothiolation of Conjugated Olefins" Synlett 2007, 11, 1785-1789. [pdf] (Invited Contribution)
 
41. Li, Z.; Capretto, D.A.; Rahaman, R.O.; He, C. "Silver-Catalyzed Intermolecular Amination of C-H Groups" Angew. Chem. Intl. Ed. 2007, 46, 5184-5186. [pdf] [C&EN]
 
40. Wegner, S. V.; Okesli, A.; Chen, P.; He, C. "Design of an Emission Ratiometric Biosensor from MerR Family Proteins: A Sensitive and Selective Sensor for Hg2+" J. Am. Chem. Soc. 2007, 129, 3474-3475. [pdf]
2006
39. Chen, P.; Bae, T.; Williams, W. A.; Duguid, E. M.; Rice, P. A.; Schneewind, O. and He, C. "An Oxidation Sensing Mechanism is Used by A Global Regulator of Staphylococcus aureus" Nature Chem. Biol. 2006, 2, 591-595. [pdf] [C&EN] [IDBD Listing]
 

38.

Li, Z.; Zhang, J.; Brouwer, C.; Yang, C.-G.; Reich, N. W. and He, C. "Bronsted Acid Catalyzed Addition of Phenols, Carboxylic Acids and Tosylamides to Simple Olefin" Org. Lett. 2006, 8:4175-8.  [pdf] 

 

37. Li, Z.; Ding, X. and He, C. "Nitrene Transfer Reactions Catalyzed by Gold Complexes" J. Org. Chem. 2006, 71:5876-80. [pdf]
 
36. Li, Z. and He, C. "Recent Advances in Silver-Catalyzed Nitrene, Carbene, and Silylene-Transfer Reactions", Euro. J. Org. Chem. 2006, 4313-4322, (an invited review). [pdf]
 
35.
Mishina, Y. and He, C. "Oxidative Dealkylation DNA Repair Mediated by the Mononuclear Non-Heme
 Iron AlkB Proteins" J. Inorg. Biochem. 2006, 100, 670-678, (an invited review). [pdf] 
 
34.
Reich, N. W.; Yang, C.-G.; Shi, Z. and He, C. "Gold(I)-Catalyzed Synthesis of Dihydrobenzofurans from
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33.

Brouwer, C. and He, C. “Efficient Gold-Catalyzed Hydroamination of 1,3-Dienes”, Angew Chem. Int. Ed. 2006, 45, 1744-1747. [pdf]

 

32.

Zhang, J.; Yang, C.-G. and He, C. “Gold(I)-Catalyzed Intra- and Intermolecular Hydroamination of Unactivated Olefins ”, J. Am. Chem. Soc. 2006, 128, 1798-1799. [pdf]

 

31.

Mishina, Y.; Duguid, M. E. and He, C. "Direct Reversal of DNA Alkylation Damage", Chem. Rev. 2006, 106, 215-232.  [pdf]

2005

30.

Yang, C.-G.; Reich, N. W. and He, C. “Intramolecular Additions of Alcohols and Carboxylic Acids to Inert Olefins Catalyzed by Silver(I) Triflate”, Org. Lett. 2005, 7, 4553-4556. [pdf]

 

29.

Mishina, Y.; Yang, C.-G. and He, C. “Direct Repair of the Exocyclic DNA Adduct 1,N6-Ethenoadenine by E. coli AlkB and Human ABH3”, J. Am. Chem. Soc. 2005, 127, 14594-14595. [pdf]

 

28.

Li, Z.; Shi, Z. and He, C. "Addition of Heterocycles to Electron Deficient Olefins and Alkynes Catalyzed by Gold(III)", J. Organom. Chem. 2005, 690, 5049-5054 (an invited contribution). [pdf]

 

27.

Yang, C.-G. and He, C. "Gold(I)-Catalyzed Intermolecular Addition of Phenols and Carboxylic Acids to Olefins", J. Am. Chem. Soc. 2005, 127, 6966-6967. [pdf]

 

26.

Duguid, M. E.; Rice, P. A. and He, C. “Implications for How the Human DNA Repair Protein AGT Locates Damage as Revealed from A Unique X-ray Structure of Its DNA Bound Form”, J. Mol. Biol. 2005, 350, 657-666. [pdf]

 

25.

Chen, P.; Greenberg, B.; Taghavi, S.; Romano, C.; van der Lelie, D. and He, C. "An Exceptionally Selective Lead(II)-Regulatory Protein from Ralstonia Metallidurans: Development of A Fluorescent Lead(II) Probe , Angew Chem. Int. Ed 2005, 44, 2715-2719.  [pdf]   C&EN, News1 News2 News3 News4  News5 News6

2004

24.

Mishina, Y.; Chen, L. X. and He, C. “Preparation and Characterization of the Native Iron(II)-Containing AlkB Protein Directly from Escherichia coli”, J. Am. Chem. Soc 2004,  126, 16930-16936. [pdf]

 

23..

Shi, Z. and He, C. “Direct Functionalization of Arenes by Primary Alcohol Sulfonate Esters Catalyzed by Gold(III)”, J. Am. Chem. Soc. 2004, 126, 13596-13597. [pdf]

 

22.

Cui, Y. and He, C. “A Silver-Catalyzed Intramolecular Amidation of Saturated C–H bonds”, Angew Chem. Int. Ed. 2004, 43, 4210-4212. [pdf]

 

21.

Shi, Z. and He, C. “Efficient Functionalization of Aromatic C–H Bonds Catalyzed by Gold(III) under Mild and Solvent Free Conditions”, J. Org. Chem. 2004, 69, 3669-3671. [pdf]

 

20.

Shi, Z. and He, C. “An Au-Catalyzed Cyclialkylation of Electron Rich Arenes with Epoxides to Prepare 3-Chromanols”, J. Am. Chem. Soc. 2004, 126, 5964-5965. [pdf]

 

19.

Mishina, Y., Lee, C.-H. J. and He, C. “Potential DNA Preferences of Human and Bacterial AlkB Proteins as Revealed from Chemical Crosslink Studies”, Nucleic Acids Res. 2004, 32, 1548-1554.  [pdf]

 

18.

He, C. and Mishina, Y. “Modeling non-heme iron proteins”, Curr. Opin. Chem. Biol. 2004, 8, 201-208. [pdf]

 

17.

Chen, P. and He, C. “Constructing Highly Sensitive and Selective Fluorescent Biosensors for Metal Ions by Using the MerR Family Proteins”, J. Am. Chem. Soc. 2004, 126, 728-729. [pdf], C&EN  Analytical Chemistry

2003

16.

Cui, Y. and He, C. “Efficient Aziridination of Olefins Catalyzed by A Unique Disilver(I) Compound”, J. Am. Chem. Soc. 2003, 125, 16202-16203. [pdf]

 

15.

Duguid, E. M.; Mishina, Y. and He, C. “A Chemical Disulfide Crosslinking Method to Investigate the Damage-Searching Mechanism of O6-Alkylguanine-DNA Alkyltransferases”, Chem. & Biol. 2003, 10, 827-835. [pdf]

 

14.

Mishina, Y. and He, C. “Probing the Structure and Function of E. coli DNA Alkylation Repair AlkB Protein through Chemical Crosslinking”, J. Am. Chem. Soc.  2003, 125, 8730-8731. [pdf]

Other Publications:

13.  He, C.; Sun, L. J.; Zhou, P.; Norman, D. P. G.; Dötsch, V.; Gross, J. D.; Lane, W. S.; Wagner, G. and Verdine, G. L. “A Zinc-Mediated Electrostatic Switch Controls the Adaptive Response of E. coli to Methylating Agents”, Mol. Cell. 2005, 20, 117-129. [pdf]

12.  He, C.; Wei, H. and Verdine, G. L. “Converting the Sacrificial DNA Repair Protein N-Ada into a Catalytic Methyl Phosphotriester Repair Enzyme”, J. Am. Chem. Soc. 2003, 125, 1450-1451.

11.  He, C. and Verdine, G. L. “Trapping Distinct Structural States of a Protein/DNA Interaction through Disulfide Cross-linking”, Chem. & Biol. 2002, 9, 1297-1303.

10.  He, C.; DuBois, J. L.; Hedman, B.; Hodgson, K. O. and Lippard, S. J. “A short Copper-Copper Distance in a (m-1,2-Peroxo)dicopper(II) Complex Having 1,8-Naphthyridine Unit as an Additional Bridge”, Angew. Chem. Int. Ed. Engl. 2001, 40, 1484-1487.

9.  He, C. and Lippard, S. J. “Synthesis and Electrochemical Studies of Diiron Complexes of 1,8-Naphthyridine-Based Dinucleating Ligands to Model Features of the Active Sites of Non-Heme Diiron Enzymes”, Inorg. Chem. 2001, 40, 1414-1420 (cover story).

8.  He, C.; Barrios, A. M.; Lee, D.; Kuzelka, J.; Davydov, R. M. and Lippard, S. J. “Diiron Complexes of 1,8-Naphthyridine-Based Dinucleating Ligands as Models for Hemerythrin”, J. Am. Chem. Soc. 2000, 122, 12683-12690.

7.   He, C. and Lippard, S. J. “Synthesis and Characterization of Several Dicopper(I) Complexes and a Spin-Delocalized Dicopper(I,II) Mixed-Valence Complex Using a 1,8-Naphthyridine-Based Dinucleating Ligand”, Inorg. Chem. 2000, 39, 5225-5231.

6.  He, C. and Lippard, S. J. “Design and Synthesis of Multidentate Dinucleating Ligands Based on 1,8-Naphthyridine”, Tetrahedron 2000, 56, 8245-8252.

5.  He, C.; Gomez, V.; Spingler, B. and Lippard, S. J. “Monodentate-Bridged Phosphodiester and Sulfate Complexes: Structural Insight into the Biological Activation of Phosphodiesters, Sulfate, and Sulfate Esters”, Inorg. Chem. 2000, 39, 4188-4189.

4.  Kaminskaia, N. V.; He, C. and Lippard, S. J. “Reactivity of m-Hydroxodizinc(II) Centers in Enzymatic Catalysis through Model Studies”, Inorg. Chem. 2000, 39, 3365-3373.

3.  He, C. and Lippard, S. J. “Modeling Carboxylate-Bridged Dinuclear Active Sites in Metalloenzymes Using a Novel Naphthyridine-Based Dinucleating Ligand”, J. Am. Chem. Soc. 2000, 122, 184-185.

2.  He, C. and Lippard, S. J. “Aminoguanidinium Hydrolysis Effected by a Hydroxo-Bridged Dicobalt(II) Complexes”, J. Am. Chem. Soc. 1998, 120, 105-113.

1.  Qian, Y.; Xie, Y.; He, C.; Li, J. and Chen, Z. “Hydrothermal Preparation and Characterization of Ultrafine Magnetite Powders”, Material Research Bulletin 1994, 29, 953-957.