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Narayanan, Madhavan, Kodali, Goutham, Xing, Yangjun, Hawkins, Mary E. and Stanley, Robert J.
Differential Fluorescence Quenching of Fluorescent Nucleic Acid Base Analogues by Native Nucleic Acid Monophosphates J. Phys. Chem. B (2010) 114 5953-5963.

Wojtuszewski-Poulin, Kristi, Smirnov, Alexandr, Hawkins, Mary, Balis, Frank, and Knutson, Jay, Conformational Heterogeneity and Quasi-Static Self Quenching in DNA Containing Fluorescent Guanine Analogs, 3MI and 6MI Biochemistry (2009)  Sept 22 48; (37)8861-8868.

Hawkins, Mary E., Fluorescent Pteridine Probes for Nucleic Acid Analysis.In Ludwig Brand and Michael L. Johnson, editors: Methods in Enzymology,Vol. 450, Burlington: Academic Press, 2008, pp. 201-231.
ISBN: 978-0-12-374586-6 Academic Press

Hawkins, Mary E., [Synthesis, purification and sample experiment for fluorescent pteridine-containing DNA: tools for studying DNA interactive systems Nature Protocols (2007) 2, No.4, 1013-1021.

Yang, Kongsheng, Matsika, Spiridoula and Stanley, Robert J. 6MAP, a Fluorescent Adenine Analogue, Is a Probe of Base Flipping by DNA Photolyase J. Physical Chem. B (2007) 111, 10615-10625.

 Parsons, Jerod and Hermann, Thomas, Conformational flexibility of ribosomal decoding site RNA monitored by fluorescent pteridine base analogues Tetrahedron 63 (2007) 3548-3552.

Augustyn, Katherine E., Wojtuszewski, Kristi, Hawkins, Mary E., Knutson, Jay R., and Mukerji, Ishita Examination of the Premelting Transition of DNA A-Tracts Using a Fluorescent Adenosine Analogue Biochemistry (2006), 45, 5039-5047.

Ignatov, Michael E., Berdis, Anthony J., Le Grice, Stuart F. J., and Barkley, Mary D. Attenuation of DNA Replication by HIV-1 Reverse Transcriptase near the Central Termination Sequence Biochemistry (2005) 44 5346-5356.

Stanley, Robert J. Hou, Zhanijia, Yang, Aiping and Hawkins, Mary E. The Two Photon Excitation Cross Section of 6MAP, a Fluorescent Adenine Anaolg (2005) Journal of Physical Chemistry B 109 3690-3695.

Myers, Jeffrey C., and Shamoo, Yousif Human UP1 as a Model for Understanding Purine Recognition in the Family of Proteins Containing the RNA Recognition Motif (RRM) J. Mol. Biol. (2004) 342 743-756.
Katilius, E., and Woodbury, N.W. Multi-photon excitation fluorescence correlation spectroscopy of fluorescent DNA base analogs Proceedings of SPIE-The international Society for Optical Engineering (2004) 5323, 160-167.
Hawkins, Mary E. and Balis, Frank M. Use of Pteridine Nucleoside Analogs as Hybridization Probes Nucleic Acids Research (2004) 32 No.7 e62.

Shchyolkina, Anna K., Kaluzhny, Dmitry N., Borisova, Olga F., Hawkins, Mary E., Jernigan, Robert L., Jovin, Thomas M., Arndt-Jovin, Donna J., and Zhurkin, Victor B., Formation of an intramolecular triple-stranded DNA structure monitored by fluorescence of 2-aminopurine or 6-methylisoxanthopterin, Nucleic Acids Research (2004) 32(2) 432-440.

Sanabia, Jason E., Goldner, Lori S., Lacaze, Pierre-Antoine, and Hawkins, Mary E., On the Feasibility of Single-Molecule Detection of the Guanosine Analogue 3-MI, Journal of Physical Chemistry, (2004) 108(39) 15293-15300.

Seibert, Eleanore, Chin, Alexander S., Pfleiderer, Wolfgang, Hawkins, Mary E., Laws, William R., Osman, Roman and Ross, Alexander pH-Dependent Spectroscopy and Electronic Structure of the Guanine Analogue 6,8-Dimethylisoxanthopterin J. Phys. Chem. A (2003) 107(1) 178-185.

Martin, C.T., Ujvari, A., and Liu, C. Evaluation of Fluorescence Spectroscopy Methods for Mapping Melted Regions of DNA Along the Transcription Pathway Methods in Enzymology 371 13-33.

Hawkins, Mary E. Fluorescent Nucleoside Analogues as DNA Probes in Vol 7 of Topics in Fluorescence Spectroscopy, DNA Technology Chapter 5/ 151-175 (2003) Kluwer Academic/Plenum Publishers, New York Ed. Joseph P. Lakowicz

Roca, Alberto I. and Singleton, Scott F., Direct Evaluation of a Mechanism for Activation of the RecA Nucleoprotein Filament, Journal of American Chemical Society, (2003), 125, 15366-15375.

Myers, J.C., Moore, S.A., and Shamoo, Y. (2003) Structure-based Incorporation of 6-Methyl-8-(2-deoxy-B-ribofuranosyl)isoxanthopteridine into the Human Telomeric Repeat DNA as a Probe for UP1 binding and Destabilization of G-tetrad Structures. Journal of Biological Chemistry 278 (43) 42300-42306.

Rist, Manuela J. and Marino, John P., Fluorescent Nucleoside Base Analogs as Probes of Nucleic Acid Structure, Current Organic Chemistry, (2002) 6 775-793.

Wojtuszewski, K., Hawkins, M., Cole, J.L., and Mukerji, I. HU binding to DNA: Evidence for Multiple Complex Formation and DNA Bending. Biochemistry (2001) 40 2588-2598.

Hawkins, Mary E., Pfleiderer, Wolfgang, Jungmann, Oliver, and Balis, Frank M., Synthesis and Fluorescence Characterization of Pteridine Adenosine Nucleoside Analogs for DNA Incorporation Analytical Biochemistry (2001) 298 231-240.

Hawkins, Mary E. Fluorescent Pteridine Nucleoside Analogs: a window on DNA Interactions_Cell Biochemistry and Biophysics_ (2001) 34(2) 257-81.

Deprez, E., Tauc, P., Leh, H., Mouscadet, J.-F., Auclair, C., Hawkins, M.E., Brochon, J.-C. DNA binding induces dissociation of the multimeric form of HIV-1 integrase: A time-resolved fluorescence anisotropy study. PNAS USA (2001), 98(18) 10090-10095.

Hawkins, M.E., Pfleiderer, W., Balis, F. M., Porter D., and Knutson, J.R. Fluorescence Properties of Pteridine Nucleoside Analogs as monomers and Incorporated into Oligonucleotides. Analytical Biochemistry (1997) 244 86-95.

Driscoll, Sarah L., Hawkins, Mary E., Balis, Frank M., Pfleiderer, Wolfgang and Laws, William R., Fluorescence Properties of a new Guanosine Analog Incorporated into Small Oligonucleotides Biophysical Journal (1997)73 3277-3286.

Hawkins, M.E., Pfleiderer, W. Mazumder, A., Pommier, Y.G., and Balis, F.M. Incorporation of a fluorescent guanosine analog into oligonucleotides and its application to a real time assay for the HIV-1 integrase 3'-processing reaction. Nucleic Acids Research (1995) 23 2872-2880

Seibert, E., Ross, Alexander J.B., and Osman, R. Quantum Mechanical Investigation of the electronic structure and spectral properties of 6,8-dimethylisoxanthopterin (2002) International Journal of Quantum Chemistry (1995) 88 (1) 28-33.

Last updated by Hawkins, Mary (NIH/NCI) [E] on Jun 20, 2013