Selected Publications

(^#Corresponding author, *Equal authorship)

Ke Bian, James C. Delaney, Xianhao Zhou, Deyu Li^# “Biological evaluation of DNA biomarkers in a chemically defined and site-specific manner” Toxics, accepted.

Ke Bian*, Stefan A. P. Lenz*, Qi Tang, Fangyi Chen, Rui Qi, Marco Jost, Catherine L. Drennan, John M. Essigmann, Stacey D. Wetmore^#, Deyu Li^# “DNA repair enzymes ALKBH2, ALKBH3, and AlkB oxidize 5-methylcytosine to 5-hydroxymethylcytosine, 5-formylcytosine, and 5-carboxylcytosine” Nucleic Acids Research, accepted.

Jessica L. Wojtaszek*, Nimrat Chatterjiee*, Javaria Najeeb*, Azucena Ramos, Minhee Lee, Ke Bian, Yaohua Xue, Deyu Li, Michael T. Hemann^#, Jiyong Hong^#, Graham C. Walker^#, Pei Zhou^# “Small molecule adjuvant disrupting Rev1-Polζ mediated mutagenic translesion synthesis improves chemotherapy” Cell, accepted.

Fangyi Chen*, Qi Tang*, Hang Ma*, Ke Bian, Navindra Seeram, Deyu Li^# “Hydrolyzable tannins are iron chelators that inhibit AlkB family DNA repair enzyme ALKBH2” Chemical Research in Toxicology, accepted.

Ang Cai*, Ke Bian*, Fangyi Chen, Qi Tang, Deyu Li^#, Bongsup Cho^# “Probing the effect of bulky lesion-Induced replication fork conformational heterogeneity using 4-aminobyphenyl-modified DNA” Molecules, 2019, 24, 1566.

Ke Bian*, Fangyi Chen*, Zachary T. Humulock*, Qi Tang, Deyu Li^# “Copper inhibits the AlkB family DNA repair enzymes under Wilson’s disease condition” Chemical Research in Toxicology 2017, 30, 1794.

Qi Tang*, Ang Cai*, Ke Bian, Fangyi Chen, Sravani Adusumalli, Alvin C. Bach II, Fatemeh Akhlaghi, Bongsup Cho, Deyu Li^# “Characterization of byproducts from chemical syntheses of oligonucleotides containing 1-methyladenine and 3-methylcytosine” ACS Omega, 2017, 2, 8205.

Fangyi Chen*, Ke Bian*, Qi Tang, Bogdan I. Fedeles, Vipender Singh, Zachary T. Humulock, John M. Essigmann, Deyu Li^# “Oncometabolites D- and L-2-hydroxyglutarate inhibit the AlkB family DNA repair enzymes under physiological conditions” Chemical Research in Toxicology 2017, 30, 1102.

Fangyi Chen*, Qi Tang*, Ke Bian, Zachary T. Humulock, Xuedong Yang, Marco Jost, Catherine L. Drennan, John M. Essigmann, Deyu Li^# “The adaptive response enzyme AlkB preferentially repairs 1-methylguanine and 3-methylthymine adducts in double-stranded DNA” Chemical Research in Toxicology 2016, 29, 687.

Bogdan I. Fedeles*, Vipender Singh*, James C. Delaney, Deyu Li^#, John M. Essigmann^# “The AlkB family of Fe(II)/α-Ketoglutarate-dependent dioxygenases: repairing nucleic acid alkylation damage and beyond” Journal of Biological Chemistry 2015, 290, 20734.  (Invited for the seventh thematic series on Metals in Biology)

Chunte S. Peng, Bogdan I. Fedeles, Vipender Singh, Deyu Li, Tiffany Amariuta, John M. Essigmann, Andrei Tokmakoff “2D IR spectroscopy of the anti-HIV agent KP1212 reveals protonated and neutral tautomers that influence pH-dependent mutagenicity” Proceedings of the National Academy of Sciences USA, 2015, 112, 3239.

Bogdan I. Fedeles, Bret D. Freudenthal, Emily Yau, Vipender Singh, Shiou-chi Chang,  Deyu Li, James C. Delaney, Samuel H. Wilson, John M. Essigmann “Intrinsic mutagenic properties of 5-chlorocytosine: A mechanistic connection between chronic inflammation and cancer” Proceedings of the National Academy of Sciences USA 2015, 112, E4571.  (Highlighted by the MIT News on August 7, 2015) 

Deyu Li*, Bogdan I. Fedeles*, Vipender Singh*, Chunte S. Peng*, Katherine J. Silvestre, Jeffrey H. Simpson, Andrei Tokmakoff, John M. Essigmann “Tautomerism provides a molecular explanation for the mutagenic properties of the anti-HIV nucleoside analog 5-aza-5,6-dihydro-deoxycytidine” Proceedings of the National Academy of Sciences USA 2014, 111, E3252.  (Highlighted by the MIT News on July 28, 2014)

Deyu Li, James C.  Delaney, Charlotte M.  Page, Xuedong Yang, Alvin S.  Chen, Cintyu Wong, Catherine L.  Drennan, John M.  Essigmann “Exocyclic carbons adjacent to the N⁶ of adenine are targets for oxidation by the Escherichia coli adaptive response protein AlkB” Journal of the American Chemical Society 2012, 134, 8896.  (Highlighted by Chemical Research in Toxicology 2012, 25, 1286.)

Gerald Kagan, Weibin Li, Deyu Li, Russell Hopson, Paul G. Williard “Characterization of dimeric chiral lithium amide structures derived from N-isopropyl-O-triisopropylsilyl valinol” Journal of the American Chemical Society 2011, 133, 6596.

Deyu Li, Gerald Kagan, Russell Hopson, Paul G. Williard “Formula weight prediction by internal reference diffusion-ordered NMR spectroscopy (DOSY)” Journal of the American Chemical Society 2009, 131, 5627.

Deyu Li, Ivan Keresztes, Russell Hopson, Paul G. Williard “Characterization of reactive intermediates by multinuclear diffusion-ordered NMR spectroscopy (DOSY)” Accounts of Chemical Research 2009, 42, 270. 

Deyu Li, Chengzao Sun, Jia Liu, Paul G. Williard “Characterization of a chiral enolate aggregate and observation of ⁶Li-¹H scalar coupling” Journal of the American Chemical Society 2008, 130, 11726.