curriculum vitae (01/04/2018) john-stephen taylor. "1h nmr assignment and melting temperature...

Curriculum Vitae (01/04/2018) John-Stephen Taylor

Mailing Address:

Department of Chemistry Campus Box 1134 Washington University 1 Brookings Drive St. Louis, MO 63130 (314)-889-6721

Birth: Fredericton, NB, Canada, June 17, 1954

Education: 1981 Ph. D. Columbia University Thesis: "An Approach to the Total Synthesis of Daunomycinone" Advisor: Gilbert Stork

1976 S.B. Massachusetts Institute of Technology

Professional History:

1997 Professor of Chemistry, Washington University 1990-97 Associate Professor of Chemistry, Washington University, Member

of the Division of Biomedical Sciences, Molecular Biology: Genetics and Biochemistry Program

1983-90 Assistant Professor of Chemistry, Washington University 1981-83: Postdoctoral Research Associate, California Institute of Technology

1981-1983 Project: Design and Synthesis of Sequence-Specific DNA Cleaving Agents, DNA Affinity Cleaving. Advisor: Peter B. Dervan

Honors:

2005-7 Special Recognition for Excellence in Mentoring, Washington University

1999 Ad Hoc Member of the NIH Bioorganic and Natural Products Study Section.

1993-01 NIH MERIT Award 1993 St. Louis Section ACS Award in Chemistry 1988-90 Alfred P. Sloan Foundation Fellow 1981-83 Damon Runyon-Walter Winchell Cancer Fund Fellow 1981 Pegram Award for Outstanding Graduate Work, Columbia

University 1977,8 Teaching Award, Columbia University 1976 Merck Index Award for Scholastic Excellence in Chemistry,

Massachusetts Institute of Technology 1975 Phi Beta Kappa, MIT

Research Interests:

Unraveling the molecular pathway from sunlight to the mutations that lead to skin cancer, photocaged DNA, design and synthesis of nucleic acid-triggered prodrug activation as a chemotherapeutic principle, design of peptide nucleic acid-based PET and optical gene expression imaging, antisense and antigene agents, mechanism of action of flavone natural products, construction of cell penetrating nanoparticles for gene therapy, gene regulation, and gene expression imaging, siRNA delivery, self-assembling DNA nanoparticles

Research Group:

5 Ph.D. students, 1 postdoc

Professional Affiliations:

American Chemical Society (Organic, Inorganic & Biological Chemistry Divisions) American Society of Photobiology

RESEARCH PUBLICATIONS (* = publications prior to being a Professor): * 1. "Design and Synthesis of a Sequence Specific DNA Cleaving Molecule.

(Distamycin- EDTA)iron(II)", P.G. Schultz, J.S. Taylor and P.B. Dervan*, J. Am. Chem. Soc. 1982, 104, 6861-6863.

* 2. "DNA Affinity Cleaving. Sequence Specific Cleavage by Distamycin-EDTA-Fe(II) and EDTA-Distamycin-Fe(II)", J.S. Taylor, P.G. Schultz and P.B. Dervan*, Tetrahedron 1984, 40, 457-465.

3. "DNA, Light and Dewar Pyrimidinones: The Structure and Biological Significance of TpT3." John-Stephen Taylor* and Michael P. Cohrs, J. Am. Chem. Soc., 1987, 109, 2834-2835.

4. "A Building Block for the Sequence Specific Introduction of cis-syn Thymine Dimers into Oligonucleotides. Solid Phase Synthesis of TpT[c,s]pTpT." John-Stephen Taylor*, Ian R. Brockie and Christine L. O'Day, J. Am. Chem. Soc., 1987, 109 6735-6742.

5. "Models for the Solution State Structure of the (6-4) Photoproduct of Thymidylyl-(3'→5')-thymidine Derived via a Distance and Angle Constrained Conformation Search Procedure." John-Stephen Taylor*, Daniel S. Garrett and Michael J. Wang, Biopolymers, 1988, 27, 1571-1593.

6. "Synthesis of a Trans-Syn Thymine Dimer Building Block. Solid Phase Synthesis of CGTAT[t,s]TATGC." John-Stephen Taylor* and Ian R. Brockie, Nucleic Acids Res. 1988, 16, 5123-5136.

7. "Solution State Structure of the Dewar Pyrimidinone Photoproduct of Thymidylyl-(3'→5')-thymidine." John-Stephen Taylor*, Daniel S. Garrett and Michael P. Cohrs, Biochemistry, 1988, 27, 7206-7215.

8. "Synthesis of a Bacteriophage DNA Containing a Site-Specific Cis-Syn Thymine Dimer" John-Stephen Taylor* and Christine L. O'Day, J. Am. Chem. Soc. 1989, 111, 401-402

9. "Cis-Syn Thymine Dimers Are Not Absolute Replication Blocks to DNA Polymerase I of E. Coli." John-Stephen Taylor* and Christine L. O'Day, Biochemistry, 1990, 29, 1624-1632.

10. "Quantitative Conversion of the (6-4) Photoproduct of TpdC to a Dewar Photoproduct upon Exposure to Simulated Sunlight" John-Stephen Taylor*, Hwang-Fun Lu and John Kotyk, Photochem. Photobiol. 1990 51, 161-167.

11. "Electron Paramagnetic Resonance Studies of Pyrimidinones" Yi Lu, Tien-Sung Lin*, and John-Stephen Taylor, J. Phys. Chem. 1990 94, 4067-4068.

12. “DNA, Sunlight and Skin Cancer”, John-Stephen Taylor*, J. Chem. Ed. 1990, 67, 835-841. 13. "1H NMR Assignment and Melting Temperature Study of cis-syn and trans-syn Thymine Dimer

Containing-Duplexes of d(CGTATTATGC)·d(GCATAATACG)" John-Stephen Taylor*, Daniel Garrett, Ian R. Brockie, Daniel Svoboda and Joshua Telser, Biochemistry 1990, 29, 8858-8866.

14. "Unraveling the Origin of the Major Mutation Induced by Ultraviolet Light, the C→T Transition Mutation at dTpdC Sites. Design and Synthesis of a DNA Synthesis Building Block for the Cis-Syn Cyclobutane Dimer of dTpdU." John-Stephen Taylor* and Sourena Nadji, Tetrahedron 1991 47, 2579-2590.

15. "Site-Specific Effect of Thymine Dimer Formation on A-Tract Bending and Its Biological Implications." Cheng-I. Wang and John-Stephen Taylor*, Proc. Natl. Acad. Sci. U. S. A. 1991 88, 9072-9077.

16. "In Vitro Evidence that UV-Induced Frameshift and Substitution Mutations at T-Tracts are the Result of Misalignment-Mediated Replication Past a Specific Thymine Dimer". Cheng-I. Wang and John-Stephen Taylor*, Biochemistry 1992, 31 3671-3681.

17. "Synthesis and Characterization of a Series of (dien)Pt(II) Derivatives as Potential Nucleic Acid Conformation and Structure Probes." John-Stephen A. Taylor*, Rushdi Alul and Martin B. Cleaver, Inorg. Chem. 1992 31, 3636-3646.

18. "Photochemically and Photoenzymatically Cleavable DNA" Sourena Nadji, Cheng-I. Wang and John-Stephen Taylor*, J. Am. Chem. Soc.. 1992 114, 9266-9269.

19. "PCNA-Induced DNA Synthesis Past Cis-Syn and Trans-Syn-I Thymine Dimers by Polymerase δ in vitro" Christine L. O'Day, Peter M. J. Burgers and John-Stephen Taylor*, Nucl. Acids Res. 1992 20, 5403-5406.

20. "In Vivo Evidence that UV-Induced C→T Mutations at Dipyrimidine Sites Could Result from the Replicative Bypass of Cis-Syn Cyclobutane Dimers or Their Deamination Products", John-Stephen Taylor* and Nan Jiang, Biochemistry, 1993, 32, 472-481.

21. "Further characterization of eukaryotic nucleotide excision nuclease: Removal of thymine dimer and psoralen monoadduct by HeLa cell free extract and of thymine dimer by xenopus laevis oocytes", Daniel L. Svoboda, John-Stephen Taylor, John E. Hearst, and Aziz Sancar*, J. Biol. Chem., 1993, 268, 1931-1936

22. "Preparation and Characterization of a Set of Oligonucleotide 49-mers Containing Site-Specific Cis-Syn, Trans-Syn-I, (6-4) and Dewar Photoproducts of TpT Sites." Colin Smith and John-Stephen Taylor*, J. Biol. Chem., 1993, 268, 11143-11151.

23. "Effect of Sequence, Adduct Type, and Opposing Lesions on the Binding and Repair of UV Photodamage by DNA Photolyase and (A)BC Excinuclease", Daniel L. Svoboda, Colin A. Smith, John-Stephen A. Taylor, and Aziz Sancar*, J. Biol. Chem., 1993, 268, 10694-10700.

24. "The Trans-Syn-I Thymine Dimer Bends DNA by ≈22o and Unwinds DNA by ≈15o", Cheng-I. Wang and John-Stephen Taylor*, Chem. Res. Toxicol., 1993, 6, 519-523.

25. "Identification and Structure Determination of a Third Cyclobutane Dimer of Thymidylyl-(3'→5')-Thymidine: The Trans-Syn-II Product" Jeffrey Kao, Sourena Nadji, John-Stephen Taylor*, Chemical Research in Toxicology, 1993, 6, 561-567.

26. "DNA Photolyase Repairs the Trans-Syn Cyclobutane Thymine Dimer" Sang-Tae Kim, Khushbeer Malhotra, Colin A. Smith, John-Stephen Taylor and Aziz Sancar*, Biochemistry, 1993, 32, 7065-7068.

27. "Comparative analysis of binding of human damaged DNA-binding protein (XPE) and Escherichia coli UvrA Damage recognition protein (uvrA) to the major UV photoproducts: T[c,s]T, T[t,s]T,

T[6-4]T, and T[Dewar]T" Joyce T. Reardon, Anne F. Nichols, Scott Keeney, Colin A. Smith, John-Stephen Taylor, Stuart Linn, and Aziz Sancar*, J. Biol. Chem. 1993, 268, 21301-21308.

28. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer", John-Stephen Taylor*, Accounts Chem. Res., 1994, 27, 76-82.

29. “Characterization of (6-4) photoproduct DNA photolyase”, Kim, S.T., Malhotra, K.; Smith, Colin A.; Taylor, John-Stephen; Sancar*, Aziz, J. Biol. Chem., 1994, 269, 8535-8540.

30. “Transcript cleavage by RNA polymerase II arrested by a cyclobutane pyrimidine dimer in the DNA template”, Brian A. Donahue, Shang Yin, John-Stephen Taylor, Daniel Reines, and Phillip C. Hanawalt*, Proc. Natl. Acad. Sci. 1994 91, 8502-8506

31. “Eliciting a DNA Photoproduct-Specific Antibody with a Dinucleotide Photoproduct Antigen”, Xiaodong Zhao and John-Stephen Taylor*, J. Am. Chem. Soc., 1994 116 8870-8876.

32. “A new ATP-independent DNA endonuclease from Schizosaccharomyces pombe that recognizes cyclobutane pyrimidine dimers and 6-4 photoproducts.” Bowman K K; Sidik K; Smith C A; Taylor J S; Doetsch* P W; Freyer, G A, Nucleic Acids Res, 1994 22, 3026-32.

33. “DNA, Sunlight annd Skin Cancer”, John-Stephen Taylor*, Int. Union Pure Appl. Chem., 1995 67,183-190.

34. “Preparation and Characterization of a Deoxyoligonucleotide 49-mer Containing a Site-specific Thymidylyl-(3'-5')-deoxyadenosine Photoproduct”, Xiaodong Zhao and John-Stephen A. Taylor*, Biochemistry, 1995 34, 1386-1392.

35. “T4 endonuclease V protects the DNA strand opposite a thymine dimer from cleavage by the footprinting reagens DNase I and 1,10-phenanthroline.” Latham, K. A., Taylor, J-S., Lloyd*, RS. J. Biol. Chem. 1995, 270, 3765-3771.

36. “Design and synthesis of a versatile photocleavable DNA building block. Application to phototriggered hybridization.” Ordoukhanian, P; Taylor*, J-S., J. Am. Chem. Soc. 1995 117, 9571-2.

37. "Mutation Spectra of M13 Vectors Containing Site-Specific Cis-Syn, Trans-Syn-I, Trans-Syn-II, (6-4) and Dewar Pyrimidinone Photoproducts of Thymidylyl-(3'→5')-Thymidine in Escherichia coli Under SOS Conditions." Colin A. Smith, Mu Wang, Linda Che, Nan Jiang, and John-Stephen Taylor*, Biochemistry, 1996, 35, 4146-4154.

38. "Remarkable Photoreversal of a Thio Analog of the Dewar Valence Isomer of the (6-4) Photoproduct of DNA to the Parent Nucleotides. Jianquan Liu and John-Stephen Taylor*, J. Am. Chem. Soc. 1996, 118, 3287-3288.

39. “Structure of d(TpA)*, the major photoproduct of thymidylyl-(3’-5’)-deoxyadenosine. Xiaodong Zhao, Sourena Nadji, Jeffrey Kao, John-Stephen Taylor*, Nucl. Acids Res., 1996, 24, 1554-1560.

40. “Mutation spectra of TA*, the major photoproduct of thymidylyl(3'-5')-adenosine, in E. coli under SOS induction” Xiaodong Zhao and John-Stephen Taylor*, Nucleic Acids Res. 1996, 24, 1561-1565.

41. "Purification and partial characterization of (6-4) photoproduct DNA photolyase from Xenopus laevis." Kim, S.-T., Malhotra, K., Taylor, J.-S., and Sancar, A. 1996 Photochem. Photobiol. 63, 292-295.

42. "Ultraviolet irradiation produces novel endonuclease III-sensitive cytosine photoproducts at dipyrimidine sites" J. Jen, D. L. Mitchell, R. P. Cunningham, C. A. Smith, J-S Taylor, and J. E. Cleaver*, Photochem. Photobiol. 1997 65 323-329.

43. "Solid phase supported thymine dimers for the construction of dimer-containing DNA by combined chemical and enzymatic synthesis. A potentially general method for the efficient

incorporation of modified nucleotides into DNA." Phillip Ordoukhanian, John-Stephen Taylor*,1997, Nucl. Acids Res. 25, 3783-3786.

44. Reaction mechanism of (6-4) photolyase. Xiaodong Zhao, Jianquan Liu, David S. Hsu, Shaying Zhao, John-Stephen Taylor, and Aziz Sancar*. 1997, J. Biol. Chem., 272, 32580-32590.

45. Structural determination of isomeric hexadeoxynucleotide photoproducts by fast atom bombardment and tandem mass spectrometry. David Vollmer, Xiaodong Zhao, John-Stephen Taylor, and Michael L. Gross*, 1997, International Journal of Mass Spectrometry and Ion Processes, 165/166, 487-496.

46. Bypass of a Site-specific cis-syn thymine dimer in an SV40 vector during in vitro replication by HeLa and XPV cell free extracts. Ingrid Ensch-Simon, Peter M. J. Burgers, and John-Stephen Taylor,* 1998 Biochemistry, 37, 8218-8226.

47. Template-directed photoligation of oligonucleotides via 4-thiothymidine. Jianquan Liu and John-Stephen Taylor*, 1998 Nucleic Acids Res., 26, 3300-3304.

48. "The ability of a variety of polymerases to synthesize past site-specific cis-syn, trans-syn-II, (6-4), and Dewar photoproducts of thymidylyl-(3'-5')-thymidine." Colin A. Smith, Jared Baeten, and John-Stephen Taylor*. 1998 J. Biol. Chem., 273, 21933-21940.

49. Thermodynamic and base-pairing studies of matched and mismatched DNA dodecamer duplexes containing cis-syn, (6-4) and Dewar photoproducts of TT. Yeuqing Jing, Jeffrey F.-L. Kao, and John-Stephen Taylor*, 1998 Nucl. Acids. Res., 26, 3845-3853.

50. Solution-state structure of a DNA dodecamer duplex containing a cis-syn thymine cyclobutane dimer, the major UV photoproduct of DNA. K. McAteer, Y. Jing, J. Kao, J-S. Taylor, M. A. Kennedy*, 1998 J. Mol. Biol., 282, 1013-1032

51. Characterization of a novel cis-syn and trans-syn-II pyrimidine dimer glycosylase/AP lyase from a eukaryotic algal virus, Paramecium bursaria chlorella virus-1. McCullough A.K., Romberg M.T., Nyaga S., Wei Y., Wood T. G., Taylor J.-S., Van Etten J. L., Dodson M. L., Lloyd R. S.*, 1998 J. Biol. Chem. 273, 13136-42

52. Structure and fragmentation mechanisms of isomeric T-rich oligodeoxynucleotides: a comparison of four tandem mass spectrometric methods. Wang, Z., Wan, K. X., Ramanathan, R., Taylor, J. S., and Gross*, M. L. 1998. J. Am. Soc. Mass Spectrom. 9, 683-691.

53. Differentiation of Isomeric Photomodified Oligodeoxynucleotides by fragmentation of Ions Produced by Matrix-assisted Laser Desorption Ionization and Electrospray Ionization. Yinsheng Wang, John-Stephen Taylor, and Michael L. Gross*. 1999 J. Am. Soc. Mass Spectrom. 10, 329-338.

54. Substrate specificity of ultraviolet DNA endonuclease (UVDE/Uve1p) from Schizosaccharomyces pombe.Avery, A. M., Kaur, B., Taylor, J.-S., Mello, J. A., Essigmann, J. M., Doetsch*, P. W. 1999 Nucleic Acids Res. 27, 2256-2264.

55. Preparation and Characterization of DNA Containing a Site-Specific Non-Adjacent Cyclobutane Thymine Dimer of theType Implicated in UV-Induced -1 Frameshift Mutagenesis. Jody Lingbeck, John-Stephen Taylor, 1999 Biochemistry, 38, 13717-24.

56. Nuclease P1 Digestion Combined with Tandem Mass Spectrometry for the Structure Determination of the DNA Photoproducts. Yinsheng Wang, John-Stephen Taylor, and Michael L. Gross, 1999 Chem. Res. Toxicol., 12, 1077-1082.

57. Interactions of Human Nucleotide Excision Repair Protein XPA with DNA and RPA70DC327: Chemical Shift Mapping and 15N NMR Relaxation Studies. Buchko, G. W., Daughdrill, G. W., de Lorimier, R., Sudha Rao, K. B., Isern, N. G., Lingbeck, J. M., Taylor, J.-S., Wold, M. S.,

Gochin, M., Spicer, L. D., Lowry, D. F., and Kennedy, M. A. 1999 Biochemistry 38, 15116-15128.

58. A Caged Ligatable DNA Strand Break. Kaijiang Zhang and John-Stephen Taylor, 1999 J. Am. Chem. Soc. 121, 11579-11580.

59. "PhrA, the major photoreactivating factor in the cyanobacterium Synechocystis sp. strain PCC 6803 codes for a cyclobutane-pyrimidine-dimer-specific DNA photolyase" Ng WO, Zentella R, Wang Y, Taylor JS, Pakrasi* HB., 2000 Arch Microbiol 173, 412-7.

60. Replication Protein A Interactions with DNA. III. Molecular Basis of Recognition of Damaged DNA. Lao, Y., Gomes, X. V., Ren, Y., Taylor, J.-S., and Wold, M. S. 2000 Biochemistry 39, 850-859.

61. Caged Single and Double Strand Breaks. Ordoukhanian, P., and Taylor, J.-S. 2000 Bioconjugate Chem. 11, 94-103.

62. Roles of E. coli DNA polymerases IV and V in lesion-targeted and untargeted SOS mutagenesis, Tang, M., Pham, P., Shen, X., Taylor, J.-S., O'Donnell, M., Woodgate, R. & Goodman*, M. F. 2000 Nature 404, 1014 - 1018.

63. Quantum Chemical Study of the Electron-Transfer-Catalyzed Splitting of Oxetane and Azetidine Intermediates Proposed in the Photoenzymatic Repair of (6-4) Photoproducts of DNA. Yinsheng Wang, Peter P. Gaspar, and John-Stephen Taylor* 2000 J. Am. Chem. Soc., 5510-5519.

64. Nucleic Acid Triggered Catalytic Drug Release. Ma, Z., and Taylor, J.-S. 2000 Proc. Natl. Acad. Sci. USA, 97, 11159-11163.

65. Specificity of DNA lesion bypass by the yeast DNA polymerase eta, Yuan, Fenghua; Zhang, Yanbin; Rajpal, Deepak K.; Wu, Xiaohua; Guo, Dongyu; Wang, Mu; Taylor, John-Stephen; Wang*, Zhigang. 2000 J. Biol. Chem., 275, 8233-8239.

66. Pyrene Nucleotide as a Mechanistic Probe: Evidence for a Transient Abasic-Like Site in the Bypass of DNA Photoproducts by T7 DNA Polymerase. Liping Sun, Mu Wang, Eric Kool, John-Stephen Taylor*, 2000 Biochemistry 39, 14603-10.

67. Error-free and error-prone lesion bypass by human DNA polymerase kappa in vitro. Nucleic Acids Res 2000 28, 4138-46, Zhang Y, Yuan F, Wu X, Wang M, Rechkoblit O, Taylor JS, Geacintov NE, Wang Z.

68. "Error-prone lesion bypass by human DNA polymerase eta" Zhang Y, Yuan F, Wu X, Rechkoblit O, Taylor JS, Geacintov NE, Wang Z 2000 Nucleic Acids Res. 28, 4717-24

69. Phototriggered Formation and Repair of DNA Containing a Site-Specific Single Strand Break of the Type Produced by Ionizing Radiation or AP Lyase Activity, Kaijiang Zhang, John-Stephen Taylor*, Biochemistry 2001 40, 153-159.

70. A Method for Quantification from Composite Spectra: Application to the Determination of Isomeric DNA Photoproducts by Tandem Mass Spectrometry, Yinsheng Wang, Don L. Rempel, John-Stephen Taylor, and Michael L. Gross* Analytical Chemistry 2001 Anal. Chem. 73, 185-91.

71. The Reaction Mechanism of DNA Glycosylase/AP Lyases at Abasic Sites, Amanda K. McCullough, Ana Sanchez, M. L. Dodson, Praveen Marapaka, John-Stephen Taylor and R. Stephen Lloyd*, 2001 Biochemistry 40, 561-8

72. "Response of human DNA polymerase iota to DNA lesions" Zhang, Y., Yuan, F., Wu, X., Taylor, J.S., Wang*, Z. 2001 Nucleic Acids Res. 29, 928-35.

73. "Translesion synthesis by yeast DNA polymerase zeta from templates containing lesions of ultraviolet radiation and acetylaminofluoreneGuo, D., Wu, X., Rajpal, D. K., Taylor, J. S., and Wang*, Z. 2001 Nucleic Acids Res. 29, 2875-83.

74. "Fragmentation of electrospray-produced oligodeoxynucleotide ions adducted to metal ions" Wang, Y., Taylor, J. S., and Gross*, M. L. 2001 J. Am. Soc Mass Spectrom. 12, 550-6.

75. "Isolation and mass spectrometric characterization of dimeric adenine photoproducts in oligodeoxynucleotides" Wang, Y., Taylor, J. S., and Gross*, M. L. 2001, Chem. Res. Toxicol. 14, 738-45.

76. Fragmentation of photomodified oligodeoxynucleotides adducted with metal ions in an electrospray-ionization ion-trap mass spectrometer. Wang, Y., Taylor, J.S., and Gross, M.L. 2001 J Am Soc Mass Spectrom 12, 1174-1179.

77. "Use of a Combined Enzymatic Digestion/ESI Mass Spectrometry Assay to Study the Effect of TATA-Binding Protein on Photoproduct Formation in a TATA Box" Wang, Y., Gross, M. L., and Taylor*, J.-S. 2001 Biochemistry 40, 11785-93.

78. "Nucleic Acid Triggered Catalytic Drug and Probe Release: A New Concept for the Design of Chemotherapeutic and Diagnostic Agents" Ma, Z., Taylor*, J.-S. 2001 Bioorg. Med. Chem. 9, 2501-10.

79. "Determination of photomodified oligodeoxynucleotides by exonuclease digestion, matrix-assisted laser desorption/ionization and post-source decay mass spectrometry" Zhang, L. K., Ren, Y., Rempel, D., Taylor, J. S. & Gross*, M. L. 2001 J Am Soc Mass Spectrom 12, 1127-35.

80. "Lesion Bypass Activities of Human DNA Polymerase µ" Y. Zhang, X. Wu, D. Guo, O. Rechkoblit, J.S. Taylor, N.E. Geacintov and Z. Wang* 2002 J. Biol. Chem. 277 44582-44587.

81. "Crystal Structure of a DNA Decamer Containing a Thymine-Dimer" Park, H. Zhang, K., Ren, Y., Nadji, S., Sinha, N., Taylor, J. S. and Kang, C. H.* 2002 Proc. Natl. Acad. 99, 15965-15970.

82. "New structural and mechanistic insight into the A-rule and the instructional and non-instructional behavior of DNA photoproducts and other lesions" Taylor*, J.S., 2002 Mut. Res. 510, 55-70.

83. "PNA-based RNA-triggered Drug Releasing System" Ma, Z., Taylor*, J.S. 2003 Bioconj. Chem. 14, 679.

84. “Yeast Pol η 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. Liping Sun‡, Kaijiang Zhang, Lilly Zhou, Paul Hohler, Eric T. Kool, X., F. Yuan, Zhigang Wang, John-Stephen Taylor*, 2003 Biochemistry, 42, 9431-7.

85. “General Strategy for the Preparation of Membrane Permeable Fluorogenic Peptide Ester Conjugates for in vivo Studies of Ester Prodrug Stability”, Xiaoxu Li, John-Stephen Taylor*, 2003 Bioorg. Med. Chem., 12 pp 545-552.

86. “DNA-Thumb Interactions and Processivity of T7 DNA Polymerase in Comparison to Yeast Polymerase η.Vincent J. Cannistraro and John-Stephen Taylor* 2004 J. Biol. Chem. 18288-18295.

87. Li, Y., Dutta, S., Doublie, S., Bdour, H.M., Taylor, J.S. and Ellenberger*, T., Nucleotide insertion opposite a cis-syn thymine dimer by a replicative DNA polymerase from bacteriophage T7. 2004 Nat Struct Mol Biol. 784-90.

88. Hwang, H., Taylor*, J. S., Role of base stacking and sequence context in the inhibition of yeast DNA polymerase η by pyrene nucleotide. 2004 Biochemistry, 43, 14612-23.

89. Cai, J., Li, X., Yue, X., Taylor*, J. S., Nucleic Acid Triggered Fluorescent Probe Activation by the Staudinger Reaction. 2004 J. Am. Chem. Soc., 126,16324-5.

90. Hwang, H., Taylor*, J. S. Evidence for Watson-Crick and not Hoogsteen or Wobble base pairing in the selection of nucleotides for insertion opposite pyrimidines and a thymine dimer by yeast DNA pol eta 2005 Biochemistry, 44, 4850-60.

91. Cai, J., Li, X., Taylor*, J. S., Improved Nucleic Acid Triggered Probe Activation Through the Use of a 5-Thiomethyluracil Peptide Nucleic Acid (PNA) Building Block, 2005 Org. Letters, 7, 751-4

92. Sun, X., Fang, H., Li, X., Rossin, R., Welch, M. J., Taylor*, J. S., MicroPET imaging of MCF-7 tumor in mice via unr mRNA-targeted peptide nucleic acids, 2005 Bioconjug. Chem. 16, 294-305

93. Turner, J. L., Becker, M. L., Li, X., Taylor, J. S., Wooley, K. L.*, PNA Directed Solution and Surface Assembly of Shell Crosslinked (SCK) Nanoparticle Conjugates, 2005, Soft Matter, 1, 69-78.

94. Huafeng Fang, Xuan Yue, Xiaoxu Li, and John-Stephen Taylor* Identification and characterization of high affinity antisense PNAs for the human unr (upstream of N-ras) mRNA which is uniquely overexpressed in MCF-7 breast cancer cells 2005 Nucleic Acids Res. 33 6700-6711. PMID: 16314303 PMCID: PMC1297704

95. Bdour, H. M., Kao, J. L., and Taylor, J. S. Synthesis and characterization of a [3-(15)N]-labeled cis-syn thymine dimer-containing DNA duplex 2006 J. Org. Chem. 71, 1640-6. PMCID: PMC2580729 Free PMC Article.

96. Vu, B., Cannistraro, V.J., Sun, L. and Taylor*, J.S. DNA synthesis past a 5-methylC-containing cis-syn-cyclobutane pyrimidine dimer by yeast pol eta is highly nonmutagenic. Biochemistry, 2006 45, 9327-35. PMID: 16866379.

97. Fiala, K.A., Brown, J.A., Ling, H., Kshetry, A.K., Zhang, J., Taylor, J.S., Yang, W. and Suo*, Z. Mechanism of Template-independent Nucleotide Incorporation Catalyzed by a Template-dependent DNA Polymerase. J Mol Biol, 2007 365, 590-602. PMCID: PMC1866274 Free PMC Article.

98. Cannistraro, V.J. and Taylor, J.S. Ability of polymerase eta and T7 DNA polymerase to bypass bulge structures. J Biol Chem, 2007 282, 11188-96. PMID: 17303570 [PubMed - indexed for MEDLINE] Free Article.

99. Li, X., Higashikubo, R. & Taylor, J. S. Use of Multiple Carboxylates to Increase Intracellular Retention of Fluorescent Probes Following Release From Cell Penetrating Fluorogenic Conjugates. 2008 Bioconjug Chem. 50-56.

100. Agarwal, M., Pandita, S., Hunt, C. R., Gupta, A., Yue, X., Khan, S., Pandita, R. K., Pratt, D., Shay, J. W., Taylor, J. S., Pandita, T. J., Inhibition of Telomerase Activity Enhances Hyperthermia-Mediated Radiosensitization, Cancer Res. 2008, 3370-8.

101. Su, D.; Kao, J.; Gross, M.; Taylor, J. S. Structure Determination of an Inter-strand-type cis-anti Cyclobutane Thymine Dimer Produced in High Yield by UVB Light in an Oligodeoxynucleotide at Acidic pH, J. Am. Chem. Soc. 2008, 11328-37. PMCID: PMC2724876 Free PMC Article.

102. Zhang, K.; Fang, H.; Chen, Z.; Taylor, J.-S.; Wooley*, K. Shape effects of nanoparticles conjugated with cell-penetrating peptides (HIV Tat PTD) on CHO cell uptake. Bioconjug. Chem. 2008 1880-1887.

103. Oquare, B. Y. and Taylor,* J.-S. Synthesis of PNA FRET Probes via an Orthogonally Protected Building Block for Post-Synthetic Labeling of PNAs at the 5-Position of U. Bioconjug. Chem. 2008 2196–2204. PMID: 18831575 PMCID: PMC2763603 Free PMC Article.

104. Fang, H., Taylor* J.-S., Serial analysis of mutation spectra (SAMS). A new approach for the determination of mutation spectra of site-specific DNA damage and their sequence dependence. Nucleic Acids Res. 2008 6004-12. PMCID: PMC2566868Free PMC Article.

105. Asgatay, S.; Petermann, C.; Harakat, D.; Guillaume, D.; Taylor, J. S.; Clivio, P. Evidence that the (6-4) photolyase mechanism can proceed through an oxetane intermediate. J Am Chem Soc 2008, 130, 12618-12619.

106. Sun, G.; Fang, H.; Cheng, C.; Lu, P.; Zhang, K.; Walker, A. V.; Taylor, J. S.; Wooley, K. L. Benzaldehyde-functionalized polymer vesicles. ACS Nano 2009, 3, 673-681.109.

107. Zhang K, Fang H, Wang Z, Taylor J-SA, & Wooley KL Cationic shell-crosslinked knedel-like nanoparticles for highly efficient gene and oligonucleotide transfection of mammalian cells 2009 Biomaterials 30, 968-77.

108. Fang, H., Zhang, K., Shen, G., Wooley, K.L. and Taylor, J.S. Cationic Shell-crosslinked Knedel-like (cSCK) Nanoparticles for Highly Efficient PNA Delivery. 2009 Mol. Pharm., 615-626. PMID: 19231840 PMCID: PMC2699773 Free PMC Article

109. Wang, R. E.; Kao, J. L.-F.; Hilliard, C. A.; Pandita, R. K.; Roti Roti, J. L.; Hunt, C. R.; Taylor, J.-S. Inhibition of Heat Shock Induction of Heat Shock Protein 70 and Enhancement of Heat Shock Protein 27 Phosphorylation by Quercetin Derivatives J. Med. Chem. 2009, 1912-1921.107.

110. Su DG, Fang H, Gross ML, Taylor JS. Photocrosslinking of human telomeric G-quadruplex loops by anti cyclobutane thymine dimer formation. Proc. Natl. Acad. Sci. U. S. A. 2009 106 12861-6. PMID: 19628696. PMCID: PMC2722299. Free PMC Article.

111. Zhang, K., Fang, H., Shen, G., Taylor, J. S., and Wooley, K. L. Well-defined cationic shell crosslinked nanoparticles for efficient delivery of DNA or peptide nucleic acids. Proc Am Thorac Soc 2009 6, 450-7. PMID: 19687218.

112. Shen G, Fang H, Song Y, Bielska AA, Wang Z, Taylor JS., Phospholipid Conjugate for Intracellular Delivery of Peptide Nucleic Acids., Bioconjug. Chem. 2009, 1729-36. PMID: 19678628. PMID: 19678628 PMCID: PMC2763590 Free PMC Article

113. Cannistraro VJ, Taylor JS., Acceleration of 5-Methylcytosine Deamination in Cyclobutane Dimers by G and Its Implications for UV-Induced C-to-T Mutation Hotspots. J. Mol. Biol. 2009, 1145-57. PMID: 19631218.

114. Kranz RG, Richard-Fogal C, Taylor JS, Frawley ER., Cytochrome C biogenesis: mechanisms for covalent modifications and trafficking of heme and for heme-iron redox control. Microbiol Mol Biol Rev. 2009 73, 510-28.

115. Zhang K, Fang H, Li Z, Ma J, Hohlbauch, SV, Taylor, JSA, Wooley KL Composite soft-matter nanoscale objects: Nanocylinder-templated assembly of nanospheres Soft Matter 2009 5, 3585-3589.

116. Ke Zhang, Huafeng Fang, Zhenghui Wang, Zhou Li, John-Stephen A. Taylor,* and Karen L. Wooley,* Structure-Activity Relationships of Cationic Shell-crosslinked Knedel-like Nanoparticles: Shell Composition and Transfection Efficiency/Cytotoxicity, Biomaterials, 2010, 1805-13. PMID: 19687218 PMCID: PMC2731805 Free PMC Article

117. Kenjiro Asagoshia, Yuan Liua, Aya Masaokaa, Li Lanb, Rajendra Prasada, Julie K. Hortona, Ashley R. Brown, Xiao-hong Wang, Hussam M. Bdour, Robert W. Sobol, John-Stephen Taylor, Akira Yasui, and Samuel H. Wilson "DNA polymerase β-dependent long patch base excision repair of UVinduced pyrimidine photoproducts in nucleotide excision repair deficient cells" DNA Repair 2010 9, 109-19.

118. Dian Su, John-Stephen Taylor, Michael Gross. HPLC and Mass Spectrometric Characterization of a New Class of DNA Photoproducts Involving Reaction of Adjoining mC and A, Chem. Res. Toxicol. 2010 23, 474-9. PMCID: PMC2838963 [Available on 2011/3/15]

119. Huafeng Fang, Yuefei Shen, John-Stephen A. Taylor, Native mRNA antisense-accessible sites library for the selection of highly effective antisense oligonucleotides, PNAs, and siRNAs" RNA 2010, 1429-35.

120. Vincent Cannistraro, John-Stephen Taylor, Methyl CpG binding protein 2 (MECP2) enhances photodimer formation at methyl-CpG sites but suppresses dimer deamination, Nucl. Acids Res. 2010, 38:6943-55 PMID: 20601406. Free article.

121. Brown, J. A.; Zhang, L.; Sherrer, S. M.; Taylor, J. S.; Burgers, P. M.; Suo, Z. Pre-Steady-State Kinetic Analysis of Truncated and Full-Length Saccharomyces cerevisiae DNA Polymerase Eta. J Nucleic Acids 2010 in press. PMCID: PMC2925389. Free PMC article. http://www.hindawi.com/journals/jna/2010/871939/

122. Brown JA, Pack LR, Sherrer SM, Kshetry AK, Newmister SA, Fowler JD, Taylor JS, Suo Z.Identification of critical residues for the tight binding of both correct and incorrect nucleotides to human DNA polymerase λ. 2010 J Mol Biol. 2010 403:505-15.

123. Song, Q., Cannistraro, V. J., and Taylor, J. S. Rotational position of a 5-methylcytosine-containing cyclobutane pyrimidine dimer in a nucleosome greatly affects its deamination rate. J Biol Chem. 2011, 6329, PMID: 21160086. Free Article

124. Identification of Quercetin Binding Proteins In Vivo with a Biotinylated Quercetin Photoaffinity Reagent, Rongsheng E.Wang, Clayton R. Hunt, Jiawei Chen, John-Stephen Taylor, Bioorg. Biomed. Chem. 2011 4710-20.

125. Inhibition of Heat Shock Transcription Factor Binding and Heat Shock Protein 70 Induction in vivo by a Linear Polyamide Binding in an Unusual 1:1 Mode, Rongsheng E. Wang, Raj K. Pandita, Jianfeng Cai, Clayton R. Hunt, John Stephen Taylor* ChemBioChem, 2012 97-104.

126. Preparation of site-specific T=mCG cis-syn cyclobutane dimer-containing template and its error-free bypass by yeast and human polymerase η. Song Q, Sherrer SM, Suo Z, Taylor JS. J Biol Chem. 2012 8021-8.

127. Dual peptide nucleic acid- and peptide-functionalized shell cross-linked nanoparticles designed to target mRNA toward the diagnosis and treatment of acute lung injury. Shrestha R, Shen Y, Pollack KA, Taylor JS, Wooley* KL. 2012 Bioconjug Chem. 2012 574-85.

128. Imaging mRNA Expression in Live Cells via PNA·DNA Strand Displacement-Activated Probes, ZhenghuiWang, Ke Zhang, Karen L.Wooley, and John-Stephen Taylor*, J. Nucl. Acids 2012 2012:962652. doi: 10.1155/2012/962652. PMID: 23056921 [PubMed] PMCID: PMC3463960

130. Efficient protection and transfection of siRNA by cationic shell-crosslinked knedel-like nanoparticles (cSCKs) Yuefei Shen, Huafeng Fang, Ke Zhang, Ritu Shrestha, Karen L.Wooley, and John-Stephen A. Taylor, Nucleic Acid Therapeutics 2013, 23, 95-108 DOI: 10.1089/nat.2012.0390.

131. Imaging mRNA expression levels in living cells with PNA∙DNA binary FRET probes delivered by cationic shell-crosslinked nanoparticles Zhenghui Wang, Ke Zhang, Jillian Smith, Sharon Bloch, Samuel Achilefu, Karen L. Wooley, John-Stephen Taylor* Org. Biomol. Chem. 2013, 2013, 11, 3159-67 DOI: 10.1039/c3ob26923j.

132. A high-throughput and quantitative method to assess the mutagenic potential of translesion DNA synthesis. Taggart, D. J., Camerlengo, T. L., Harrison, J. K., Sherrer, S. M., Kshetry, A. K., Taylor, J. S., Huang, K., and Suo*, Z. (2013) Nucleic Acids Research 2013 41, e96.

http://www.hindawi.com/journals/jna/2010/871939/

133. Nucleic Acid-directed Self-assembly of Multifunctional Gold Nanoparticle Imaging Agents Ziyan Zhang, Yongjian Liu, Chad Jarreau, Michael J. Welch, and John-Stephen A. Taylor*, Biomaterials Science. 2013, 1055.

134. Antisense peptide nucleic acid functionalized cationic nanocomplex for in vivo mRNA detection. Yuefei Shen, Ritu Shrestha, Aida Ibricevic, Sean P. Gunsten, Michael J. Welch, Karen L. Wooley, Steven L. Brody, John-Stephen A. Taylor and Yongjian Liu, Interface Focus 2013, in press.

135. Roles of Free Radicals in Type 1 Phototherapeutic Agents: Aromatic Amines, Sulfenamides, and Sulfenates .Lin*, T. S., Rajagopalan, R., Shen, Y., Park, S., Poreddy, A. R., Asmelash, B., Karwa, A., and Taylor, J. S. J Phys Chem A. 2013, 117, 5454-5462.

136. A Simple and Efficient Synthesis of an Acid-labile Polyphosphoramidate by Organobase-catalyzed Ring-Opening Polymerization and Transformation to Polyphosphoester Ionomers by Acid Treatment, Zhang, Shiyi; Wang, Hai; Shen, YueFei; Zhang, Fuwu; Seetho, Kellie; Zou, Jiong; Taylor, John-Stephen; Dove, Andrew; Wooley*, Karen, Macromolecules 2013, 46, 5141-5149.

137. Polyphosphoester-based cationic nanoparticles serendipitously release integral biologically-active components to serve as novel degradable inducible nitric oxide synthase inhibitors. Shen Y, Zhang S, Zhang F, Loftis A, Pavía-Sanders A, Zou J, Fan J, Taylor JS, Wooley KL. Adv Mater. 2013, 25, 5609-14.

138. Effect of sequence and metal ions on UVB-induced anti cyclobutane pyrimidine dimer formation in human telomeric DNA sequences. Smith JE, Lu C, Taylor* JS. Nucleic Acids Res. 2014 Apr;42(8):5007-19. doi: 10.1093/nar/gku163. Epub 2014 Mar 4. PMID: 24598261.

139. Synergistic Modulation of Cyclobutane Pyrimidine Dimer Photoproduct Formation and Deamination at a TmCG Site Over a Full Helical DNA Turn in a Nucleosome Core Particle, Song, Q., Cannistraro, V. Taylor,* J.-S.Nucl. Acids Res. 2014 13122-33. PMID: 25389265. PMCID: PMC4245940.

140. Biomolecules. The dark side of sunlight and melanoma. JS Taylor* Science, 2015, 824. PMID: 25700500.

141. Design, synthesis, and characterization of nucleosomes containing site-specific DNA damage, JS Taylor*, DNA Repair, 2015 59-67. PMID: 26493358

142. Rapid deamination of cyclobutane pyrimidine dimer photoproducts at TCG sites in a translationally and rotationally positioned nucleosome in vivo. Vincent J. Cannistraro, Santhi Pondugula, Qian Song, and John-Stephen Taylor*, J. Biol. Chem., 2015, 26597-609.

143. DNA bending modulated cis-syn cyclobutane thymidine dimer formation in T11-tracts in rotationally phased nucleosome core particles and a DNA mini-circle. Kesai Wang and Taylor,* J.S., Nucleic Acids Res. 2017 7031-7041. doi: 10.1093/nar/gkx427.

144. Photochemical evidence for the presence of a reverse-Hoogsteen hairpin structure in human telomeric DNA sequences, Lu, Chen; Smith, Jillian; Taylor,* J.S.Photochem. Photobiol. 2018 in press.

Monographs. 1. "Biological role of (6-4) photoproducts and cyclobutane dimers", Mitchell, D. L.; Pfeifer, G. P.;

Taylor, J.-S.; Zdzienicka, M. Z.; Nikaido, O. In Frontiers of Photobiology; Shima, A.; Ichahashi, M.; Fujiwara, Y.; Takebe, H., Eds.; Excerpta Medica: New York, 1993; pp. 337-344.

2. "Mechanisms and Mutagenic Consequences of Photoproduct Bypass by Replicative and DNA Damage Bypass Polymerases." in "From DNA photolesions to mutations, skin cancer and cell death" (Évelyne Sage, Régen Drouin and Mahmoud Rouabhia, editors). Comprehensive Series in Photosciences, RS-C Publishers (Royal Society of Chemistry, UK). 2005. pp. xxii + 312 pp. ISBN-10: 0854043268, ISBN-13: 978-0854043262.

3. "Structure and Properties of DNA Photoproducts" in DNA Damage Recognition : W. Siede, Y.W. Kow, and P.W. Doetsch (Eds.) DNA Damage Recognition. Marcel-Decker, Inc. New York, NY. (Book Chapter). 872 pp. ISBN-10: 0824759613 ISBN-13: 978-0824759612. 67-94.

4. “Imaging Genetic Information” 2015 Chapter 13 in “Nanotechnology for Biomedical Imaging and Diagnostics: From Nanoparticle Design to Clinical Applications”, Mikhail Y. Berezin, ed., ISBN: 978-1-118-12118-4. Pg. 373-400. DOI: 10.1002/9781118873151.ch13

GRANT SUPPORT:

Active 5RO1CA040463-27 (Taylor) 8/1/11 - 05/31/17 1.8 Academic NIH $190,915 current year DC DNA Photolesion Structure-Activity Relationships The major goal of this project is to investigate the interaction of site-specific photoproduct-containing DNA with DNA polymerases by MS, NMR, and x-ray structural studies, in vitro replication studies, and in vivo mutagenesis studies. Specific Aims: (1) To test the hypothesis that nucleosomes can greatly affect the deamination rate & hence mutagenicity of C/mC containing dimers. (2) To test the hypothesis that error-free bypass of undeaminated mC-containing CPDs contributes to the progression to skin cancer through demethylation of CpG sites. (3) To test the hypothesis that photoproduct formation in telomeres may be unusual & could contribute to skin cancer induction. Previously funded proposals and other support (chronological):

Washington University: Junior Faculty Start-Up Grant, $80,000, 1983-1985.

Research Corporation Cottrell Grant: "N-15 NMR Probes for DNA-Molecule Interactions" grant amount $12,000, one time grant, awarded 2/1/84.

PRF: Type G Grant #15790-64; "Synthesis and Characterization of DNA Photolesions" $7,500 annual direct costs, 6/1/84-5/31/86.

BRSG: "Design and Characterization of DNA Conformational Probes", $7,750 annual direct costs, 4/1/84-3/31/85.

BRSG: "Platinum-Based Z-DNA Probes and DNA Interstrand Crosslinkers", $8,800 annual direct costs, 4/1/85-3/31/86.

NIH: "DNA Photolesion Structure-Activity Relationships, grant amount, $233,726, 7/1/85-6/30/88.

BRSG: "Structure-Activity Relationships of DNA Crosslinkers", $4,500 annual direct costs, 4/1/86-3/31/87.

BRSG: "Design and Synthesis of Genes for the Study of Protein-Protein Interactions", $10,000, period of award, 4/1/87-3/31/88.

Monsanto: "Hetero-Bifunctional agents for nucleic acid-nucleic acid and nucleic acid-protein crosslinking", $50,000 direct costs; 1/1/88-12/31/90; part of larger project entitled "Development of a new class of antiviral agents".

BRSG: "Model Peptides and Proteins for the Study of Protein-Protein Interactions", $10,000, period of award, 4/1/89-3/31/90.

Alfred P. Sloan Foundation Fellowship, $25,000 direct costs, 1988-1990.

NIH: "DNA Photolesion Structure-Activity Relationships", $768,691 direct costs, 7/1/88-6/30/93. (Competitive 5 year renewal of a previous 3 year grant.)

EMSL (Environmental Magnetic Sciences Laboratory, Richland WA): "Mechanism of (6-4) photoproduct recognition by XPA." 4 weeks of 750 MHz time, 2 weeks of 600 MHz time. Collaboration with Michael Kennedy. 1/99-1/99.

NIH: "DNA Photolesion Structure-Activity Relationships", $854,166 total direct costs; direct costs, 5/1/93-4/30/01. (Competitive 5 year renewal of a previous 3 year grant + 3 year extension as a MERIT award.). The major goal of this project is to synthesize site-specific photoproduct-containing DNA for NMR and x-ray structural studies, bending and unwinding studies, in vitro repair and replication studies, and in vivo mutagenesis studies

NIH: "Nucleic Acid Triggered Prodrug and Probe Activation" $90,000, 7/1/01-6/30/04 RO1 CA92477 (Taylor) The major goal of this project is to develop a new approach to chemotherapy based on disease-specific triggered release of drugs from a pair of complementary nucleic acid carrying prodrug and catalyst.

NCI/NASA "Nanoscale Bioconjugates as Passive and Active Detection, Diagnosis and Treatment Systems" $133,000 (sub) 09/30/01-9/29/04 BBA #N01-CO-17016-32 (Wooley) Goals. The goal of my project is to identify cancer-specific mRNA sequences that can be used to target radionuclide-based diagnostic and therapeutic agents via complementary PNA's and/or moeRNAs.

NIH: Stress Responses and Radiosensitivity " $22,329 available to Taylor 9/1/97- 8/31/2002 PO1 CA75556 (Roti Roti) I was a coproject leader of a synthetic/molecular biology project entitled “The interaction between gene expression and DNA damage due to ionizing radiation” and the major goal was to synthesize model systems of ionizing radiation damaged DNA and study the effect on transcription in vitro and in vivo.

NIH: Cellular Stress Responses and Radiosensitivity $150,000 available to Taylor PO1 CA104457-01 (Roti Roti) 7/1/04-6/30/09 I was a project leader of a synthetic/molecular biology project entitled “Design and Synthesis of Gene-Specific Agents to Modulate Hyperthermia Induced Radiosensitization (HIR)” and the major goal is to synthesize PNA and polyamide-based anti gene agents to control expression of heat shock protein and other proteins

involved in the heat shock response to ionizing radiation in an attempt to improve the therapeutic effectiveness of radiation therapy.

NIH: Integrated Nanosystems for Diagnosis & Therapy U01 HL080729-01 (Wooley, PI) 5/1/05-4/30/10 8% NIH/NHLBI Programs of Excellence $169,00 (sub) The major goal of this project is the development of a group of well characterized & versatile nanoscale agents that can be assembled, labeled, targeted, filled & activated as needed for the combined purposes for diagnosis & treatment of various diseases of relevance to the NHLBI. There are 10 Co-PI’s on this grant including UC-Berkeley and UC-Santa Barbara. Karen Wooley, Washington University, is the PI. My role is to design antisense imaging agents for disease-specific and gene therapy gene expression. Kay Yow V Foundation: Nanoparticle Breast Cancer Imaging Agents Kay Yow V Foundation Grant (Taylor and Welch) 2009-2011 ($50,000 to JST) Abstract. Collaboration between Michael Welch and myself to develop nanoparticle-based breast cancer imaging agents. HHSN268201000046C (Wooley) 08/20/10 - 08/19/15 1.8 Academic NIH Programs of Excellence $1,984,650 current year TD ($123,569 DC to Taylor) Integrated Nanosystems for Diagnosis & Therapy Four projects and two Developmental Projects are supported by two Cores to develop degradable, organic polymer-based nanomaterials with controlled size, shape, composition and surface chemistry to achieve appropriate biodistribution and targeting, controlled surface ligand distribution to optimize molecular recognition of specific biomarkers, and controlled release of payload to provide therapeutic benefits in the imaging and treatment of lung and cardiovascular diseases.

Invited Presentations:

1. "Design and Synthesis of Sequence Specific DNA Cleaving Agents", January 30, 1984, University of Missouri, St. Louis, Missouri; hosted by Lol Barton.

2. "Structure and Conformational Analysis of the (6-4) Photoproduct of DNA", Computer Aided Drug Design Workshop, February 14, 1986, Washington University School of Medicine, St. Louis, Missouri; hosted by Garland Marshall.

3. "Conformational Analysis of the (6-4) Photoproduct of DNA" and "Design and Synthesis of Z-DNA Specific Probes" SYBYL Users Meeting, June 5, 1986, Clayton, Missouri; hosted by Garland Marshall.

4. "Synthetic and Structural Studies on DNA Photolesions", June 20, 1986, Department of Molecular Biology, Scripps Clinic and Research Foundation, La Jolla, California; hosted by Darryl Rideout.

5. "A Combined NMR and Molecular Modeling Approach to the Determination of the Structure and Conformation of Large Molecules: The (6-4) Photoproduct of DNA", Symposium on

Biopolymers in Food Systems, XVI Northeast Regional Meeting of the ACS, June 22-25, 1986 at the State University of New York, Binghamton, New York, Abstract #45; hosted by Peter Givens.

6. Eighteenth Annual NSF Workshop on Organic Synthesis and Natural Products Chemistry (WOSNPC-XVIII) July 8-12, 1987, Fort Collins, CO; hosted by Scott Denmark.

7. "Combined NMR and Molecular Modeling Approach to Solution State Structure Determination: Conformation of DNA Photolesions" in "Recent Advances in Magnetic Resonance Techniques and Applications" Symposium, Washington University, September 10, 1987; hosted by Andre D'Avignon.

8. "DNA Photolesions: Isolation, Structure Determination and Site-Specific Incorporation into DNA." University of Georgia, September 25, 1987; hosted by George Majectich.

9. "DNA Photolesions: Isolation, Structure Determination and Site-Specific Incorporation into DNA." University of North Carolina, September 27, 1987; hosted by Aziz Sancar.

10. "Combined Chemical and Biological Approach to Structure-Activity Relationships in Ultraviolet Light-Induced Mutagenesis." Purdue University, November 17, 1987; hosted by Bill Jorgensen.

11. "Photochemistry and Photobiology of TpT Sequences of DNA" Amoco Research Center, Naperville, IL, November 20, 1987; hosted by Cruickshank.

12. "DNA, Light and Cancer" Hendrix College, Conway Arkansas, October 1988.

13. "Sunlight and Skin Cancer. Unravelling the Molecular Connection." University of Chicago, Chicago IL, October 23, 1988; hosted by David Lynn.

14. "Sunlight and Skin Cancer. Unravelling the Molecular Connection." San Francisco State University, San Francisco, CA November 4, 1988; hosted by.

15. "DNA Photolesion Structure Activity Relationships" University of California, Berkeley, CA, November 7, 1988; hosted by David Wemmer.

16. "Sunlight and Skin Cancer. Unravelling the Molecular Connection." California

Institute of Technology, Pasadena, CA, November 9, 1988; hosted by graduate student

17. "Sunlight and Skin Cancer. Unravelling the Molecular Connection." Columbia University, February 16, 1989; hosted by Koji Nakanishi.

18. "DNA, Light and Cancer" as part of the symposium "DNA Damage" National ACS Meeting, Dallas, Texas April 10, 1989, BIOL 1; hosted by Lawrence Hurley.

19. "DNA Photoproduct Structure-Activity Relationships" as part of the "State-of-the-Art Symposium. Molecular Architecture: Design, Synthesis, and Function of Supramolecular Structures" National ACS Meeting, Dallas, Texas April 13, 1989, CHED 135; hosted by Pennington.

20. "Sunlight and Skin Cancer. Unraveling the Molecular Connection." Missouri Organic Day, April 15, 1989; hosted by Bill Bunnelle.

21. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" as part of a Symposium on Computer-Aided Drug Design, Washington University, St. Louis, Missouri, May 1, 1989; hosted by Garland Marshall.

22. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" Massachusetts Institute of Technology, Boston, MA, September 27, 1989; hosted by John Essigmann.

23. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" and "Design, Synthesis and Properties of Bis-Platinum(II) Interstrand DNA Crosslinkers" University of Vermont, Burlington, Vermont October 24,25 1989; hosted by Nicolas Farrell.

24. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" as part of a Symposium on the Role of Chemistry in Human Health, 24th ACS Midwest Regional Meeting, St. Louis, Missouri, November 1-3, 1989.

25. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" Emory University, Department of Biochemistry, February , 1990.

26. "A Combined Chemical, Physical and Biological Approach to Unravelling DNA Photoproduct Structure-Activity Relationships." Annual Meeting of the American Society of Photobiology, Vancouver, Canada, June 16, 1990.

27. "DNA, Sunlight and Skin Cancer" American Chemical Society Local Section Meeting, Columbia, Missouri, November 27, 1990.

28. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" Yale University, Wednesday, February 6, 1991, Alanna Schepartz, host.

29. "Unraveling the Molecular Connection Between Sunlight and Skin Cancer" Washington University School of Medicine, Department of Biochemistry and Molecular Biophysics, Timothy Lohman, host.

30. "Site-Specific Effect of Cis-Syn Thymine Dimer Formation on A-tract Bending and DNA Replication. A Possible Mechanism for the Origin of UV-Induced Deletion Mutations at A-tracts." Annual Photochemistry and Photobiology Meeting, June 22, 1991, Symposium entitled "Photochemistry and the Nucleic Acids". Chaired by Harry Morrison.

31. "Unraveling the Molecular Basis of Sunlight-Induced Mutations: Mechanistic Studies on the Replicative Bypass of DNA Photoproducts." ACS Meeting, New York, NY, August 1991, Chaired by Tadgh Begley.

32. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Vanderbilt University, School of Medicine (Center in Molecular Toxicology). Peter Gungerich and Thomas Harris, hosts. September 27, 1991.

33. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Saint Louis University, Department of Chemistry. Judy Durham, Host. October 17, 1991.

34. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Monsanto Company. Randy Weiss, Host. November 4, 1991.

35. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Southern Illinois University, Edwardsville. Kahzeli, Host. November 13, 1991.

36. " Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Department of Moelcular Biology and Pharmacology, Washington University Medical School. Dec. 9, 1991. Douglass Covey, host.

37. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Department of Pathology, Washington University Medical School, April 20, 1992. Dr. Alice Pentland, host.

38. "Thymine Dimer-Induced Frameshift and Substitution Mutations" Mutagenesis Gordon Research Conference, Plymouth State College, New Hampshire, July 2, 1992. Thomas Kunkel, Chairman.

39. Photochemistry and photobiology conference. Kyoto, Japan, September 7, 1992.

40. Hokkaido University. Sapporo, Japan Eiko Ohtsuka, host, September 14, 1992.

41. Tohoku University, Sendai, Japan, Masahiro Hirama, host, September 16, 1992.

41. University of Tokyo, Tokyo, Japan, Shibasaki, host, September 18, 1992.

42. Department of Biochemistry, Tokyo Institute of Technology, Ookayama, Japan, Hirose, host, September 19, 1992.

43. Department of Chemistry, Tokyo Institute of Technology, Ookayama, Japan, Eiichi Nakamura, host, September 21, 1992.

44. Department of Biomedical Science Tokyo Institute of Technology, Yokahama, Japan, Yoshihiro Fukimori, host, September 22, 1992.

45. Institute of Molecular Modeling and Drug Design, Washington University, Denise Boisen, host, September 31, 1992.

46. Department of Chemistry, University of Missouri, St. Louis, Valerian D'Souza, host, October 5, 1992.

47. Grinnell College, November 15, 1992, plenary lecture at PEW Midstates undergraduate symposium, James (Jim) Swartz, host.

48. University of Maryland, December 1, 1992, J.P. Mariano, Host.

49. "Thymine dimer photoproduct structure-activity relationships." Mutagenesis Gordon Conference, Ventura,CA, February, 1993. Cleaver organizer, and Smerdon, co-organizer.

50. "Photoproduct-induced frameshift and substitution mutations at T-tracts", EMS conference, Norfolk, VA.

51. "On the origin of uv-induced frameshift mutations" UCSF, May 27, 1993, James Cleaver, host, Biophysics.

52. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." UCSF, May 28, 1993, Martin Shetlar host, Pharmaceutical Chemistry.

53. "Unraveling the Molecular Pathway from Sunlight to Skin Cancer." Northwestern, June 3, 1993, Department of Chemistry, Rick Silverman, host.

54. ASP meeting, July Chicago, 1993,.

55. Bioorganic symposium, University of Chicago, November 1993.

56. Scripps Institute, invited speaker, 1993, Darryl Rideout, host.

57. “DNA, Sunlight and Skin Cancer”, Plenary Lecture, IUPAC meeting Prague, Czech Republic, July 1994.

58. “DNA Photoproduct Structure-Activity Relationships”, Washington State University, June, 1995.

59. “DNA Photoproduct Structure-Activity Relationships”, European Society for Photobiology, Cambridge, September 1995.

60. “ Site-specifically photocleavable DNA.” Ordoukhanian, P., and Taylor, J.-S. (1996) Photochem. Photobiol. 63, 67S, Gary Schuster, organizer.

61. “Revised structure and mutagenic properties of the TA* photoproduct.” Zhao, X., Nadji, S., Kao, J. L.-F., and Taylor, J.-S. (1996) Photochem. Photobiol. 63, 77s. Jean Cadet, organizer.

62. “A combined chemical, physical and molecular biological approach to unraveling the structure-activity relationships in mutagenesis by UV light”, Wellman Laboratories of Photomedicine, Department of Dermatology, Massachusetts General Hospital, September 24, 1996. Robert Redmond, host.

63. “From sunlight to skin cancer: A combined synthetic, physical and biological approach to unraveling DNA phtooproduct structure-mutagenicity relationships.” SIU Carbondale, October 4, 1996. Department of Microbiology and Medicinal Chemistry, Douglas Fix, host.

64. "Structure-Activity Relationships in Repair and Replication Past DNA Photoproducts" as part of a 2 day symposium entitled "Chemical and Structural Approaches to Damaged DNA Recognition" Hokaido University, Japan, July 15-16, 1998, Eiko Ohtsuka and John Stewart, organizers.

65. "Structure-Activity Relationships in Repair and Replication Past DNA Photoproducts" Phillip Hanawalt Group Retreat, Asilomar, CA, September 21-23, 1998.

66. "Structural Probes of DNA Lesion Bypass Mechanisms" ASM Conference on DNA Repair and Mutagenesis: Mechanism, Control, and Biological Consequences, Hilton Head, NC, November 1-7 (1999).

67. "Nucleic Acid Triggered Catalytic Prodrug Activation: A General Approach to the Design of Highly Selective Antiviral and Anticancer Agents" 221st National ACS Meeting San Diego CA, April 5, 2001.

68. "Mechanistic Investigations of Trans-Photodimer Synthesis by DNA Polymerases, University of Kentucky, Ky, April 30, 2001, Zhigang Wang, Host.

69. "Nucleic Acid Triggered Drug Release: A New Approach to Highly Specific Chemotherapeutic Drugs" Southeast Missouri State University, October 10, 2001.

70. "Mechanistic and mutagenic consequences of photoproduct bypass by polymerases binding bent or linear templates" Mutagenesis Gordon Research Conference, Ventura, CA, March, 2002.

71. "Mechanisms and Mutagenic Consequences of Photoproduct Bypass by Replicative and DNA Damage Bypass Polymerases." American Society for Photobiology Annual Meeting, Quebec City, Canada, July 13-17, 2002.

72. "Nucleic Acid Triggered Catalytic Drug Release. A New Approach to Patient-Specific Chemotherapeutic Agents" Shanghai Institute of Organic Chemistry, March 2003.

73. "Nucleic Acid Triggered Catalytic Drug Release. A New Approach to Patient-Specific Chemotherapeutic Agents" Tsinghua University, Bejing China 2003.

74. "Influence of base pair geometry, H-bonding, and base stacking on nucleotide insertion opposite pyrimidine dimers by yeast pol eta," Hanshin Hwang, Hussam Bdour, Liping Sun, and John-Stephen Taylor*, ACS National Meeting, August 28, 2005.

75. "Mechanistic studies on the origin of UV-induced C to T mutations" Bich Vu, Liping Sun, Vincent Cannistraro, Michael Gross, and John-Stephen Taylor,* ACS National Meeting, August 28, 2005.

76. " Nucleic Acid Triggered Prodrug Activation. A New Concept for Patient-Specific Chemotherapy", Department of Chemistry, University of Missouri, Columbia, Kent Gates, host. October 21, 2005.

77. "Mechanisms of nucleotide insertion opposite normal and photodamaged DNA by replicative and DNA damage polymerases" John-Stephen Taylor,* Pacifichem, Honolulu, Hawaii, December 19, 2005.

78. "Nucleic Acid Triggered Prodrug Activation: A New Concept for Patient-Specific Chemotherapeutic Agents " Department of Medicinal Chemistry University of Minnesota, March 28, 2006, Dr. Abul-Hajj, host.

79. "PNA-based Agents for Imaging Gene Expression" in: The Second Annual Nanotechnology & the Life Sciences Scientific Symposium, Washington University Medical School, St. Louis, MO, 4/30/07.

80. “Unraveling the Molecular Pathway of Sunlight-Induced C to T Mutations” U. C. Riverside, Riverside, CA 4/4/2007 - Yinsheng Wang, Host

81. “Unraveling the Molecular Pathway of Sunlight-Induced C to T Mutations” Missouri State, Springfield, MO, 4/23/07 Gary Meints, Host.

82. “Unraveling the Molecular Pathway of Sunlight-Induced C to T Mutations Associated with Skin Cancer” Ohio State University, Columbus Ohio - Zucai Suo Host 2007.

83. "PNA-based Imaging Agents (approximate title)" University of Texas, Medical Branch, Galveston, Scott Gilbertson, host, February 4, 2008

84. "Unraveling the Molecular Pathway from Sunlight to Mutations Linked to Skin Cancer" Telluride Research Conference on Nucleic Acid Chemistry - Cynthia Burrows organizer, Aug 4-8, 2008.

85. “cSCK Nanoparticles For Transfection of Therapeutic And Diagnostic Nucleic Acids” Session on Nanotherapeutics. 1st Annual Symposium of the St. Louis Institute of Nanomedicine: Pathway to Translation, February 13, 2010.

86. “Towards Peptide Nucleic Acid-based Diagnostic and Therapeutic Agents and Delivery Systems”, University of South Florida. Jianfeng Cai, host, March 18, 2010.

87. “Unraveling the Molecular Pathway from Sunlight to Mutations Linked to Skin Cancer” NSF Workshop. Georgia State University. Atlanta GA, May 24, 2010, Zhen Huang, host.

88. “Photochemistry of Human Telomeric G-Quadruplex DNA” American Society of Photobiology Annual Meeting 2010. Jean Cadet, host, Brown University, Providence, RI. June 13, 2010.

89. “Elucidating the Mechanism of C to T Mutation Hotspots Associated with Skin Cancer” Wayne State University, October 1, 2010, Ashok Bhagwat, host.

90. “Towards Nucleic Acid-based Diagnostic and Therapeutic Agents and Delivery Systems”, USTC, Hefei, China March 7, 2011

91. “Towards Nucleic Acid-based Diagnostic and Therapeutic Agents and Delivery Systems”, Peking University, Beijing, China, Yuan Li, Host Long-ping Wen, March 9, 2011.

92. “Towards Nucleic Acid-based Diagnostic and Therapeutic Agents and Delivery Systems”, Beijing Institute of Technology, Beijing, China, Mei Zhang, Host, March 11, 2011.

93. “Towards Nucleic Acid-based Diagnostic and Therapeutic Agents and Delivery Systems”, University of St. Louis, St. Louis, George Goekel, Host. March 14, 2011.

94. “Towards Nucleic Acid-based Diagnostic and Therapeutic Agents and Delivery Systems”, Washington University Medical School, Jim Janetka, Host, March 22, 2011.

95. “Effect of methylation, sequence context, protein binding, and nucleosome position on DNA cyclobutane pyrimidine dimer formation and deamination that leads to C to T mutations” ASP Meeting Montreal June 24, 2012.

96. “Mechanistic studies of the deamination-bypass pathway for sunlight-induced C to T mutations observed in skin cancers” ACS Meeting, Philadelphia, August 19, 2012.

97. “Photochemistry of G-quadruplex Forming Sequences in Telomeric and Promoter DNA” American Society of Photobiology meeting, San Diego, CA June 15, 2014.

98. “Towards Peptide Nucleic Acid-Based mRNA Imaging and Therapeutic Agents” Tulane University, New Orleans, LA, October 17, 2014. Janarthanan Jayawickramarajah, host.

99. “Effect of nucleosome formation and bending on cyclobutane dimer formation in T11-tracts. American Society of Photobiology Meeting, Tampa, FL, May, 2016.

100. “The role of DNA sequence and chromatin structure in the formation of UV signature mutations associated with skin cancer” February 23, 2017, Department of Molecular Physiology and Biophysics. Vanderbilt University School of Medicine. Bryan Venters, host. 2017.

EDITOR: Member, Advisory Editorial Board of the ACS publication: "Chemical Research in Toxicology"

1991-1993. REVIEWER AND REFEREE: Funding agencies

PRF, NSF, NIH Journals

Analytical Biochemistry Biochemistry Bioconjugate Chemistry Bioorganic and Medicinal Chemistry Letters ACS Chemical Biology Journal of the American Chemical Society Journal of Biological Chemistry Journal of Computer-Aided Molecular Design Journal of Organic Chemistry Journal of Medicinal Chemistry Nucleic Acids Research Photochemistry and Photobiology Proceedings of the National Academy of Sciences U. S. A. Science Scientific Reports Tetrahedron

CONSULTANT:

Monsanto Company Previously. Reliable Biopharmaceutical Company Sigma Scientific Advisory Board for Nanovir

RESEARCH ASSOCIATES: Former Research Scientists: Vincent Cannistraro (2000-2016). Senior Research Scientist. Former Postdoctoral Associates:

Mitch Gandelman (Summer 1989-Summer 1990) PhD, 1983, Analytical Chemistry, University of Colorado, Boulder. Advisor: John Birks. Faculty, School of Medicine, University of Conneticutt, CT. Present position unknown.

Ashok Reddy (Fall 1988-1991) PhD, 1988, Organic Chemistry, Pune University, India. Advisor: Rama Rao. Thesis title: "Synthesis of Biologically Active Compounds." Currently: doing a residency in a Hospital in Detroit.

Steven Graham (Summer 1991-Summer 1994, NIH Postdoctoral Fellow) PhD, 1990, State University of New York, Stony Brook. Advisor: Prestwich. Current: Assistant Professor of Chemistry, Oklahoma State University.

Sourena Nadji (Spring 1989-1997) PhD, 1978, Physical Organic Chemistry, University of East Anglia, Norwich, England. Advisor: Katritsky. Thesis title: Studies in Prototropic Tautomerism. Research, design and synthesis of DNA photoproduct building blocks. Current Position: Reliable Biopharmaceutical.

Pascale Clivio (1997)

Marapaka Praveen (1997 - 1999).

Xiaoxu Li (2002-2004). Postdoctoral Fellow.

Zhihui Qin (2002 -2004 ) Postdoctoral Fellow

Hussam Bdour (2001-2007). Postdoctoral Fellow.

Efrem Mebrahtu (2007-2009) Postdoctoral Research Assosciate

Gang Shen (2007-2010) Postdoctoral Research Assosciate. Now at Pfizer, Cambridge, MA.

Huafeng Fang (2002-2010) Research Scientist, Florida.

Long Xu (2012-date)

Archana Parameswar (2012-2015)

Santhi Pondugula (2014-2015)

Graduate Students: PhDs:

1. Ian R. Brockie (Spring 1984-Summer 1988) BS, Chemistry, 1983, Rose-Hulman Institute of Technology; Ph.D. 1989, Thesis title: "Design and synthesis of cis-syn and trans-syn Thymine Dimer Building Blocks. Synthesis and Characterization of d(TT[c,s]TT), d(CGTAT[t,s]TATGC) and d(CGTAT[t,s]TATGC)-c(GCATAATACG)." Current position: Technical support, Sigma Chemical Company, St. Louis, MO.

2. Rushdi Alul, (Spring 1987-Spring 1989) BA, Chemistry, University of Missouri, St. Louis, 1981; Ph.D. 1989. Thesis title: "Design, Synthesis and DNA Binding Properties of a Series of Mono- and Bis(Platinum(II)) Complexes." Postdoctoral Research with Robert Letsinger at Northwestern in DNA synthesis. Research scientist at Synthecell. Currently, Senior Scientist at GeneTrak.Vysis, IL.

3. Christine L. O'Day (Spring 1985-Summer 1989) BS, Chemistry, University of Missouri, Columbia, 1984. Thesis Title: "Synthesis and Structure-Activity Relationships of Site-Specific Cis-Syn and Trans-Syn Thymine Dimers." Postdoctoral with John Abelson at Caltech in RNA splicing. Research Director, Oridigm, Seattle WA. Current: Seattle Genetics.

4. Michael P. Cohrs (Spring 1985-Summer 1989) BS, Chemistry, Georgia Institute of Technology, 1984. Thesis Title: "Isolation and Characterization of the Dewar Pyrimidinone

Photoproduct of TpT. The First Member of a New Class of DNA Photoproducts." Senior Research Scientist at Armour Pharmaceutical Kankakee, IL. Present position unknown.

5. Daniel Garrett (Spring 1986-1990) BS, Biochemistry, Manchester College, 1985. Thesis Title: "Combined NMR and Molecular Modeling Studies on Dewar and (6-4) Photoproducts of TpT and d(CGTATTATGC)·d(GCATAATACG) Containing a Cis-Syn Thymine Dimer". Postdoctoral Research Associate with Angela Gronenborn at NIH, Bethesda Maryland. Current: Staff Scientist at NIH, Bethesda, MD.

6. Daniel Svoboda (Fall 1986-1991) BA, Chemistry, 1984, Washington University. Ph.D. Thesis Title: "The role of flanking sequence on the replication and repair of DNA containing single and multiple site specific cis,syn-thymine dimers in vitro". Current position: Postdoctoral Research Associate with Aziz Sancar at University of North Carolina, Chapel Hill. Postdoctoral with Jean-Marie Vos at UNC. Professor, Faculty of Medicine, University of Montreal, Canada. Position now unknown.

7. Michelle Paskiewiecz (Spring 1987-1991) BA, Chemistry, Southern Illinois University, Edwardsville, 1987. Thesis Title: "Design and Synthesis of a Potential Bioreductive Alkylator of DNA Based on Anthramycin". Postdoctoral Research Associate, Monsanto Company, St. Louis, Missouri. Current position: Research Scientist, Mallinckrodt, St. Louis, MO.

8. Jill Zitzewitz (Spring 1987-1991) BA, Chemistry, Carthage College 1987. Ph.D. Thesis title: Multiplicative site-directed mmutagenesis: A new approach to the study of protein folding. Current position: Postdoctoral research associate: Pennsylvania State University, Robert Matthews. Associate Professor, University of Massachusetts Medical School.

9. Nan Jiang (Spring 1988-1991) BS, Chemistry, 1985, Fudan University; MS, Organic Chemistry, 1987, Fudan University, P.R.C.; Ph.D. Thesis Title: "In vitro and in vivo replication studies of the cyclobutane photodimers of TpdU and TpT". Current position: Postdoctoral research associate, Washington University Medical School, Carl Frieden. Current, Research Scientist, PharMingen, San Diego, CA.

10. Cheng-I Wang (Spring 1989-1992) BS, Chemistry, 1984, National Tsing Hua, Taiwan. Ph.D. thesis title: "Structure-activity relationships of site-specific cis-syn cyclobutane thymine dimer containing T6 tracts". Postdoc: University of California, San Francisco, Charles Craik. Current Principal Investigator at Singapore Immunology Network.

11. Colin Smith (Spring 1989-1993) BS, Chemistry, 1987, Reed College. Ph.D. Thesis title: “In vitro and in vivo mutation spectra of the cis-syn, trans-syn, (6-4) and Dewar photoproducts of TpT at a unique site”, American Cancer Society Fellow (1994-1997) with Alan Frankel, Gladstone Institute of Virology and Immunology, University of California, San Francisco, CA. Associate Professor, American University in Beruit.

12. Jeanette Robins Hill (1989-1994) B.S., 1984, Chemistry, Northeast Missouri State. Ph.D. May 1994, Thesis Title: "Study of coiled-coil protein structure-stability relationships using multiplicative site-directed mutagenesis"; Postdoctoral Fellow, Michael McDaniel, Washington University School of Medicine, St. Louis, MO.

13. Lisa Kroutil (1989-1994) BS, Chemistry, University of Missouri, Rolla; Ph.D. May 1994, Thesis title: "Mechanistic studies of misalignment-mediated DNA photoproduct-induced frameshift and substitutuion mutagenesis at T-tracts"; Postdoctoral Fellow with Thomas Kunkel,

NIEHS, NC. Associate Professor of Chemistry: Department of Chemistry University of Wisconsin-River Falls.

14. Shang Yin (1989-1994). B.S.Chemistry 1983, M.S. Chemistry, Shangdong University, P.R.C.. Ph.D. August 1994, Thesis title: "In vitro and in vivo mutation spectra of T-tracts containing site-specific cis-syn and trans-syn cyclobutane thymine dimers" Postdoctoral Fellow with Thomas Kunkel, NIEHS, NC. Current Position: Sr. IT Analyst at Duke Energy Corp.

15. Xiaodong Zhao (1992-1995) B.S. Chemistry 1987, M.S. Organic Chemistry 1990, Nankai University, Nakai, PRC; Ph.D. thesis title “Structure-Activity Relationships of Photoproduct-Specific Antibodies and the TA* Photoproduct” Postdoctoral Fellow with Aziz Sancar, University of North Carolina, NC. Postdoctoral Fellow with Michael Pirrung. Current: Amersham-Pharmacia. Current: Staff Development Scientist, Beckman Coulter, San Diego.

16. Philip Ordoukhanian, (Fall 1992- Fall 1997) S.B. Chemistry, University of Missouri, St. Louis, MO. Ph.D. Thesis "Caged DNA". Postdoctoral: Gerald Joyce, Scripps Institute, La Jolla, CA. Nucleic Acids Proteomics Center, Scripps.

17. Jianquan Liu (Fall 1993-Summer 1998). B.S. Peking University 1987, M.S. Chemistry Institute of Academica Sinica 1990, Ph.D. thesis title: "Photochemistry and photobiology of DNA containing 4-thiothymidine." Postdoctoral: Peter Schultz, Scripps Institute, La Jolla, CA. Intel, Heliobiosense, Current: Gilead Sciences.

18. Mu Wang (Fall 1994-Summer 1998). B.S. Sichuan University, 1986, M.S. Oregon State 1994, Ph.D. thesis title: "In vitro and in vivo mutagenesis studies of cis-syn, trans-syn-I, trans-syn-II, (6-4) and Dewar photoproducts of thymidylyl-(3'-5')-thymidine". Postdoctoral: Suk-Hee Lee, Cancer Research Institute, Indiana University School of Medicine, Indianapolis, Indianna. Assistant Professor, IUPUI

19. Yeuqing Jing (Fall 1992-Fall 1998). BS Chemistry, Fudan University, 1988, Ph.D. thesis title: "NMR and thermodynamic studies on photoproduct-containing DNA dodecamers", Employment: Research scientist, Monsanto company.

20. Ingrid Ensch-Simon (Fall 1993-Summer 1997). Diplom in Biology 1989, University of Bonn, Ph.D. thesis title: "Replication of an SV40 vector containing a cis-syn cyclobutane thymine dimer by human HeLa and Xeroderma pigmentosum variant cell-free extracts" (Ph.D. awarded by the University of Bonn, Germany 1999).

21. Jody Lingbeck. (Spring 1995-Summer 2000) Investigation of site-specific (6-4) photoproducts and nonadjacent dimers in DNA" Postdoctoral Research Assistant, Washington University Medical School. Research Scientist at Seastar International.

22. Yingie Ren (Spring 1995-Fall 2000) Ph.D. thesis title: "Synthetic, spectroscopic, and thermodynamic studies of DNA duplexes containing site-specific cis-syn and trans-synm cyclobutane thymine dimers." Pharmacist.

23. Kaijiang Zhang, (Spring 1996-Spring 2001). Design, Synthesis and Applications of Caged DNA Strand Breaks. Working for the USPTO.

24. Yinsheng Wang (Spring 1996-Spring 2001) Assistant Professor, U.C. Riverside. "Mass Spectrometry for the Study of DNA photodamage: Structure determination, quantification, and Applications. Professor of Chemistry, U. C. Riverside.

25. Wei Li (Summer 2001) "NMR Studies of I. Phtoodamaged DNA duplexes, II. Sodium concentrations in septic mouse and III. Two iron chelates as potential brain MRI contrast agents"

25. Zhaochun Ma (Spring 1996-Spring 2002) Nucleic Acid Triggered Catalytic Drug Release: A New Concept for the Design of Disease-Specific Chemotherapeutic Agents Applied Biosystems, Forster City, CA.

26. Liping Sun "Study of dipyrimidine photoproduct translesion synthesis mechanism by DNA replicative and damage bypass polymerases using structural probes" Postdoc at Washington University Medical School. Research Scientist at Genentech.

27. Hanshin Hwang " Role of base stacking, H-bonding, and fingers residue on nucleotide selection opposite the undamaged and damaged DNA by yeast DNA polymerase eta" Stanford University Postdoc. Now works for a company in Korea.

28. Yimin Wang "Design, synthesis and characterization of N3-alkylated cis-syn thymine dimers" Worked for a company in China. Current: faculty member. 29. Xuan Yue - December 2006 "Design and Synthesis of Gene-Specific Agents to Modulate Hyperthermia Induced Radiosensitization", August 30, 2006. Postdoc for David Corey, UT Southwestern. Current: Abbott Diagnostics.

30. Jianfeng Cai - December 2006 (10/30/2006) "Design and synthesis of nucleic acid templated and targeted drugs and probes." Postdoctoral with Andrew Hamilton, Yale. Associate Professor of Chemistry, University of South Florida.

31. Bich Vu - August 2007 Probing DNA photoproduct deamination kinetics and DNA binding protein interactions by mass spectrometry. Senior scientist at Covidien.

32. Berekete Oquare - December 2007. Design and synthesis of peptide nucleic acid (PNA) agents for imaging gene expression Postdoc at Washington University, Current: Associate consultant, Eli Lilly and Company.

33. Ajay Kshetry - 2008. Design and synthesis of modified deoxynucleotides, DNA, and PNA for biological studies Works for Tijian Radiopharmaceuticals.

34. Alina Handorean -2008. Effects of active site amino acids and photoproduct deamination on nucleotide insertion by yeast DNA polymerase eta Current: Teaching Associate Professor at Colorado School of Mines.

35. Dan Gu -December 2008. DNA-protein conjugates for structural studies of polymerase eta and for nucleic acid triggered prodrug activation. SUNY Albany. Current: Senior Manager, Hangzhou-IPS, China.

36. Dian Su - March 2010. Discovery and identification of new DNA photoproducts and investigation of the redox mechanism of human apurinic/apyrimidinic endonuclease 1 (hApe1) protein. Postdoc at PNL, Washington. Research Scientist at Genentech.

37. Rongsheng Wang – November 2010. Development and study of inhibitors of heat shock protein 70 induction. Assistant Professor at Temple University, PA.

38. Zhenghui Wang – July 2011 - Studies of fluorescent imaging for mRNA detection in living cells. Current: Intellectural Property Associate at Dechert LLP

http://proquest.umi.com/pqdweb?index=5&did=1475170581&SrchMode=2&sid=4&Fmt=2&VInst=PROD&VType=PQD&RQT=309&VName=PQD&TS=1290540464&clientId=9108











39. Yinyin Song – Aug 2011 - design, synthesis and characterization of lipidated pna-peptide conjugates as potential therapeutic and diagnostic reagents.

40. Ziyan Zhang – Aug 2012. DNA and Peptide Functionalized Gold Nanoparticles for Biological Imaging and Transfection. Inteum Company Market Research Analyst.

41. Qian Song – September 2012. Modulation of Cis-syn Cyclobutane Pyrimidine Dimer Formation and Deamination at CpG Sites by Nucleosome Particles and Its Implications for Deamination Bypass Mechanism for the Origin of C to T Mutations. Northwestern University. Current: Postdoc at Stanford University.

42. Yuefei Shen – May 2013. Development of antisense therapeutic and imaging agents to detect and suppress inducible nitric oxide synthase (iNOS) expression in acute lung injury (ALI). Current: U Mass Medical School, with Dr. Michael Czech.

43. Jillian Smith – May 2013. Anti thymine photodimer formation in human telomeric DNA and putative G-quadruplex forming sequences in promoter regions. Current: Assistant Professor at Fairfield University, CT.

44. Zifan Li – August 2014. Development of inducible Nitric Oxide Synthase (iNOS) mRNA Imaging with Radiolabeled Antisense Probes in Living Cells. Current: Research Scientist at Arrowhead Pharmaceuticals.

45. Kesai Wang – August 2017. Effects of Nucleosome Structure on DNA Photoproduct Formation and Deamination. Current: Research Scientist at Frontage Laboratories.

Ph.D. Candidates:

46. Chen Lu

47. Innocent Harelimana

48. Yangjing Wang

Masters Degrees:

1. Hwang-Fun Lu (Summer 1987 - Summer 1989) BS, MS, Monsanto Company 2. Xiaohong Zhu (Fall 1994--10/10/96) B.S. Chemistry, USTC, Hefei, PRC; Ph.D. Thesis

project: Origin of photochemically induced T to C mutations. 3. Allan Pan - (2007) 4. Poulomi Sengupta - (2009) 5. Biao Xiang – 2nd

One Time Graduate Students:

Ge Wu (Spring 1988) BS, Chemistry, Fudan University (Withdrew from program, presently in the biochemistry program at UCLA.)

Shari Menefee, (Spring 1987-Fall 1988) BA, Chemistry, University of Missouri, St. Louis.

Ying Li (Spring 1986) Transferred to Georgia State.

Paul Kratochwill (Spring 1985) BS, Chemistry, 1984, Kalamazoo College; withdrew from program, occupation unknown.

Zehua Zhu (Summer 92) Transferred to Caltech. Unknown.

Emily Mauer - (2008)

Division of Biological Sciences Rotation Students: Cathy Chan (Spring/Summer 1989) Timothy Meier (Fall, 1992) Zhang Wang (Summer 1994) Seth Gammon (Spring 2001) Washington University Undergraduate Research Assistants:

Joseph Tessier (Spring 1984-Spring 1985) BS, Chemistry, 1985; MS, 1987, Chemistry, Rutgers University (Unknown).

Jenifer Frueh (Spring 1984-Spring 1985) BS, Chemistry, 1986; Chemistry Ph.D. candidate at University of Colorado Boulder (G. Barney Ellison, one paper with Gaspar, one with Ellison). Quality Control Scientist at Mead Johnson Nutrition Evansville, Indiana

Robert Cheek, B.S. (Spring 1985) Chemistry BS Nuel O'Neil (Spring 1985) never matriculated Mary Munson (Summer 1987-Spring 88) BS Chemistry; Ph.D. Yale University (Lynne Regan,

1996), Princeton University Postdoc (SNARE protein) 8 publications. Associate Professor U. Massachusetts Medical School.

Denise Ippensen (Summer 1988-1990) BS Biochemistry; Ph.D. U. of Colorado, Boulder (1996) No publications under her maiden name. Texas Tech?

Phillip Dawson (Summer 1990-1992) BS Biochemistry, Scripps, Associate Professor, Scripps Jeffrey D. Hartgerink (Summer 1990-1992) B.S. Biochemistry, Ph.D. 1999 Scripps (6 papers)

Associate Professor, Rice University ShaAvhree Buckman (Spring 1991), Washington University Medical School, 6 papers. Ph.D.

1999. Director - Center for Drug Evaluation and Research Food and Drug Administration. Janine Smith () Laura Wedderburn (Spring 1993-) Janey Wang ()

Jared Baeten (Summer 1993-Spring 1995) University of Washington. Professor, MD, University of Washington, Allergy and Infectious Disease, Epidemeology and Global Health.

Linda Che (Fall 1993-Spring 1995) Victoria Katzov (Fall 1994) Megumi (Meggie) Okumura (Spring 1994-Spring 1995) Kai-Zhu Chi (Summer 1995-97 ) Germany Albert Yoo (Summer 1995-97) Washington University School of Medicine (MD degree).

Instructor at Harvard Medical School Phillip Marks Ecker (98/99) Heather Knowles (99)

William Neeley (Summer 2000-2001) Ph.D. MIT - Steven Lippard. Wolf Greenfield Law Firm - Technology Specialist

Paul Hohler (Summer 2001-2003) University of Maryland, Physics, University of Illinois, Chicago Physics. Postdoc at Texas A&M.

Karen Ruff (Fall 2001- 2004) PhD in Chemistry, Harvard with David Liu. karen Dafang Zhang (Fall 2005-2009) Harvard Medical School. Ronald Chang (Spring 2007-2009) WU Medical School Sachi Nagaoka (Spring 2011) Medical School Alexander Loftis (Spring 2012-2-016) Graduate Student, MIT Nicholas Kohler (Spring 2015-2016) Hyunchang Kwok (Spring 2015-2016) Summer Undergraduate Research Participants:

Michael J. Wang (Summer 1984) Harvard undergraduate; presently an MD/PhD candidate at Johns Hopkins School of Medicine. Martin B. Cleaver (Summer 1984, 1985) New College undergraduate; presently a PhD candidate

in Organic Chemistry at Harvard University. (published two papers) Jerold Fisher (Summer 1985) University of Illinois undergraduate. Scott M. Law (Summer 1986) Southeast Missouri State undergraduate; PhD in Biochemistry at University of Wisconsin, Madison. (Record, then Goodman at USC) R. Christopher DeCharms (Summer 86) Brown undergraduate; University of California, San

Fransisco. Ph.D. 1998 (3 Publications, Nature, PNAS) CEO at Omneuron Julia Spirk (Summer 87) North East Missouri State undergraduate; will attend Northwestern as a PhD candidate in Biochemistry, Molecular and Cell Biology. Business IT

Lead at Pfizer Sherri Ousley (Summer 88) Trinity College, CT. Jeffrey Bagdon (Summer 90) University of Northern Illinois, Chemistry BS. Melissa Preis (Summer 91) Northeast Missouri State, Chemistry BS. Talib Ali (Summer 92) Pew Foundation Fellow Jared Baetan (Summer 93) Supported by the Pew Charitable Trusts administered throught the

PEW midstates Science and Mathematics Consortium ([email protected]) Linda Che (Summer 94) Jared Baetan (Summer 94) Howard Hughes Mi Zhou (Summer 99) from Hendrix College, AR William Neeley (Summer 2000) Colleen Collins (Summer 2000) Paul Hohler (Summer 2000) Dafang Zhang (Summer 06, 08) Ronald Chang (Summer 07,08) Alexander Loftis (Summer 12, 13) Nicholas Kohler (Summer 2015, 2016) Hyunchang Kwok (Summer 2015) Michael Daugherty (Summer 2015) Jeremey Fisher (Fall 2015)

Research Assistants Wenjin Wang (97-99) Nan Li (99-2000) Bryan Venters (Summer 2000-2003) DEPARTMENTAL SERVICE Committees: Chemistry Department: Graduate Student Admissions Committee (Chairman 1984/5, 85/86, organic representative, 86/87, 88/89, chairman 89/90, 90/91, member 97/98, 98/99) Organic Seminar Chairman (83/84, 88/89, 89/90) Organic Faculty Search Committee (86/87, 87/88, 89/90, 02-04, 10-12, 14/15) Inorganic Search Committee (90/91) Inorganic/Materials/Physical search committee (98,99,00) Building Committee (86/87, 97-01) NMR Committee (88-date) Ad Hoc Committee on Security (88/89) Undergraduate Work Committee (89-date) Computer Committee (88-91) Biophysical Task Force (90/91) Recruiting Committee (90/91)

Small computer committee (96/97) Chemistry Admissions Committee (1998-9) UV/Vis Spectrophotometer and DNA Synthesis Instrumentation (99-date) Physical and Theoretical Chemistry Search Committee (01/02) Organic Chemistry Search Committee (02-04, 10) Joint Chemistry - Biology Search Committee (05-06) Joint Chemistry - Biochemistry and Molecular Biophysics Search Committee (2007) External Chemistry Department Chair Search (09) Chemistry Department Graduate Recruiting in China (twice)

Biomedical Sciences Division:

Molecular Biophysics Task Force - Committee to design and implement a molecular biophysics program within the Biomedical Sciences Division. (90/91)

Recruiting Committee (93) Plant Biology Faculty Search Committee (98,99,00) CBI Training Grant Committee (99,00,01) CBI Training Grant Co-Director (01-03) CBI Training Grant Directors (04)

Howard Hughes Grants Committee (1998-9) DeGutis Prize Committee (2015)

College of Arts and Sciences.

Moog Fellowship Committee (11,12) Presentations on Data Management for Summer Undergraduate Research Participants (Summer:

11,12,13, 14,15,16) Committee for Undergraduate Research Ethics Training (16,17)

Other:

Howard Hughes Grant spokesman for the Chemistry Department (97) Co-authored the Chemistry Department Vision Statement (2001) Ad Hoc Member of the NIH Bioorganic and Natural Products Study Section Review (2000,

2011) Participated in the 2008 International Graduate Scholarship Conference at the China World

Hotel, Beijing, China, October 17-18, 2008 to help recruit graduate students to our university and specifically to our department

Courses Taught: Qualitative Organic Analysis Laboratory (Chem 358, Fall 83, 84, 85, 86) DNA Structure and Function, with Sally Elgin (Bio 5432, Spring 84,87) Nucleic Acids Chemistry (Chem 520, Spring 86, 06,07; Fall 88, 90, 93-01, 03, 04, 05, 06, 07,

13,14,15,16) Nucleic Acids Chemistry (Chem 485, Spring 2016) Special Topics. Mutagenesis and Repair. (3 lectures, Bio 5911, Spring ‘96). Organic Chemistry II (Chem 252, Spring 88, 89, 90, 01) Organic Chemistry I (Chem 251, Fall 03, Fall 05, Fall 07, Organic Chemistry I (Chem 261 Fall 09, 11, 14, 16) Freshman Seminar in Biology (Bio 181, Fall 85, 86) Freshman Seminar in Chemistry (Chem 181, Fall 87, 88, 89, 90, 00, 01, 02) Bioorganic Chemistry (Chem 453, Fall 89, 91)

Spectral Methods in Organic Chemistry (Chem 558, Spring 91-93, Spring 07, Spring 09, 10, 11, 12, 13,17) Organic Chemistry Laboratory (Chemistry 257, Spring 94, 95, 96, 97, 99, 04) Organic Mechanisms Journal Club (Chem 458, Fall and Spring, 2003-date). Biochemistry Journal Club (Chem 515, Fall and Spring 13,14,15,16,17) DNA Repair (3 Lectures, Bio5318 Spring '06) Special Topics in Organic Chemisty: Nanomedicine (Chem 555, Fall 06, 11, 13)

Organizer and Host "Frontiers in Rational Drug Design", Joint Washington University-Monsanto Symposium, November 13, 1987, co-hosted with Dr. James Bashkin of Monsanto.

"Structure-Activity Relationships in Repair and Replication of Photodamaged DNA" American Society for Photobiology 1990 meeting June 18, 7:00-10:00 PM, Vancouver, Canada.

Section on Biological Chemistry, Midwest Regional ACS Meeting, November 9, 1990.

"Problems and Progress in Deconvoluting UV Mutation Spectra" ASP Meeting Phoenix AZ '94.

American Society of Photobiology Meeting June, 2012. Montreal, Canada.

American Society of Photobiology Meeting, June 2014, San Diego, CA

Workshops Pew NMR Workshop (6-9/8/90). "Combined NMR and Molecular Modeling Approach to Solution State Structure Determination." Outreach Washington University High School Outreach Program: (1) Talk at University City High School, 1991 (2) Talk with demonstrations, October 30, 1991 to the annual meeting of the outreach program members. (3) Organized "Beyond the Wow", a one day chemical demonstrations program held at the St. Louis Science Center, for the ACS in celebration of National Chemistry Week, November 1993. (4) Organized "The World of Atoms, Molelcules and Materials Through the Eyes of a Computer", a one day computer demonstrations program to be held at the St. Louis Science Center, for the ACS in celebration of National Chemistry Week, November 12, 1994. Community Service (1) St. Louis ACS Award Coordinator, Local ACS Section, St. Louis, MO (2016-date)

curriculum vitae (01/04/2018) john-stephen taylor. "1h nmr assignment and melting temperature...

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