Publications

Found 25 results
Filters: Author is Williams, Loren Dean  [Clear All Filters]
2020
S. J. Mascuch, Fakhretaha-Aval, S., Bowman, J. C., Ma, M. Thu H., Thomas, G., Bommarius, B., Ito, C., Zhao, L., Newnam, G. P., Matange, K. R., Thapa, H. R., Barlow, B., Donegan, R. K., Nguyen, N. A., Saccuzzo, E. G., Obianyor, C. T., Karunakaran, S. C., Pollet, P., Rothschild-Mancinelli, B., Mestre-Fos, S., Guth-Metzler, R., Bryksin, A. V., Petrov, A. S., Hazell, M., Ibberson, C. B., Penev, P. I., Mannino, R. G., Lam, W. A., García, A. J., Kubanek, J. M., Agarwal, V., Hud, N. V., Glass, J. B., Williams, L. Dean, and Lieberman, R. L., “A blueprint for academic labs to produce SARS-CoV-2 RT-qPCR test kits”, Journal of Biological Chemistry, p. jbc.RA120.015434, 2020.
M. Frenkel-Pinter, Haynes, J. W., Mohyeldin, A. M., C, M., Sargon, A. B., Petrov, A. S., Krishnamurthy, R., Hud, N. V., Williams, L. Dean, and Leman, L. J., “Mutually stabilizing interactions between proto-peptides and RNA”, Nature Communications, vol. 11, no. 1, 2020.
2019
M. Frenkel-Pinter, Haynes, J. W., C, M., Petrov, A. S., Burcar, B. T., Krishnamurthy, R., Hud, N. V., Leman, L. J., and Williams, L. Dean, “Selective incorporation of proteinaceous over nonproteinaceous cationic amino acids in model prebiotic oligomerization reactions”, Proceedings of the National Academy of Sciences USA, vol. 116, no. 33, pp. 16338 - 16346, 2019.
2018
D. C. Okafor, Bowman, J. C., Hud, N. V., Glass, J. B., and Williams, L. Dean, “Folding and Catalysis Near Life’s Origin: Support for Fe2+ as a Dominant Divalent Cation”, in Prebiotic Chemistry and Chemical Evolution of Nucleic Acids, Springer International Publishing, 2018, pp. 227 - 243.
C. M. Runnels, Lanier, K. A., Williams, J. Krish, Bowman, J. C., Petrov, A. S., Hud, N. V., and Williams, L. Dean, “Folding, Assembly, and Persistence: The Essential Nature and Origins of Biopolymers”, Journal of Molecular Evolution, vol. 86, no. 9, pp. 598 - 610, 2018.
M. S. Bray, Lenz, T. K., Haynes, J. William, Bowman, J. C., Petrov, A. S., Reddi, A. R., Hud, N. V., Williams, L. Dean, and Glass, J. B., “Multiple prebiotic metals mediate translation”, Proceedings of the National Academy of Sciences, vol. 115, no. 48, pp. 12164 - 12169, 2018.
2017
D. C. Okafor, Lanier, K. A., Petrov, A. S., Athavale, S. S., Bowman, J. C., Hud, N. V., and Williams, L. Dean, “Iron mediates catalysis of nucleic acid processing enzymes: support for Fe(II) as a cofactor before the great oxidation event”, Nucleic Acids Research, vol. 45, no. 7, pp. 3634 - 3642, 2017.
T. K. Lenz, Norris, A. M., Hud, N. V., and Williams, L. Dean, “Protein-free ribosomal RNA folds to a near-native state in the presence of Mg 2+”, RSC Advances, vol. 7, pp. 54674 - 54681, 2017.
2016
B. Gulen, Petrov, A. S., C. Okafor, D., Wood, D. Vander, Neill, E. B. ’, Hud, N. V., and Williams, L. Dean, “Ribosomal small subunit domains radiate from a central core”, Scientific Reports, vol. 6, p. 20885, 2016.
2015
A. S. Petrov, Gulen, B., Norris, A. M., Kovacs, N. A., Bernier, C. R., Lanier, K. A., Fox, G. E., Harvey, S. C., Wartell, R. M., Hud, N. V., and Williams, L. Dean, “History of the ribosome and the origin of translation”, Proceedings of the National Academy of Sciences, vol. 112, no. 50, pp. 15396 - 15401, 2015.
J. C. Bowman, Hud, N. V., and Williams, L. Dean, “The ribosome challenge to the RNA world.”, J Mol Evol, vol. 80, no. 3-4, pp. 143-61, 2015.
2014
A. S. Petrov, Bernier, C. R., Hsiao, C., Norris, A. M., Kovacs, N. A., Waterbury, C. C., Stepanov, V. G., Harvey, S. C., Fox, G. E., Wartell, R. M., Hud, N. V., and Williams, L. Dean, “Evolution of the ribosome at atomic resolution.”, Proc Natl Acad Sci U S A, vol. 111, no. 28, pp. 10251-6, 2014.
A. S. Petrov, Bernier, C. R., Gulen, B., Waterbury, C. C., Hershkovits, E., Hsiao, C., Harvey, S. C., Hud, N. V., Fox, G. E., Wartell, R. M., and Williams, L. Dean, “Secondary structures of rRNAs from all three domains of life.”, PLoS One, vol. 9, no. 2, p. e88222, 2014.
2013
S. S. Athavale, J Gossett, J., Bowman, J. C., Hud, N. V., Williams, L. Dean, and Harvey, S. C., “In vitro secondary structure of the genomic RNA of satellite tobacco mosaic virus.”, PLoS One, vol. 8, no. 1, p. e54384, 2013.
C. Hsiao, Lenz, T. K., Peters, J. K., Fang, P. - Y., Schneider, D. M., Anderson, E. J., Preeprem, T., Bowman, J. C., O'Neill, E. B., Lie, L., Athavale, S. S., J Gossett, J., Trippe, C., Murray, J., Petrov, A. S., Wartell, R. M., Harvey, S. C., Hud, N. V., and Williams, L. Dean, “Molecular paleontology: a biochemical model of the ancestral ribosome.”, Nucleic Acids Res, vol. 41, no. 5, pp. 3373-85, 2013.
N. V. Hud, Cafferty, B. J., Krishnamurthy, R., and Williams, L. Dean, “The origin of RNA and "My Grandfather's Axe".”, Chem Biol, vol. 20, no. 4, pp. 466-74, 2013.
C. Hsiao, Chou, I. - C., C Okafor, D., Bowman, J. C., O'Neill, E. B., Athavale, S. S., Petrov, A. S., Hud, N. V., Wartell, R. M., Harvey, S. C., and Williams, L. Dean, “RNA with iron(II) as a cofactor catalyses electron transfer.”, Nat Chem, vol. 5, no. 6, pp. 525-8, 2013.
A. S. Petrov, Bernier, C. R., Hershkovits, E., Xue, Y., Waterbury, C. C., Hsiao, C., Stepanov, V. G., Gaucher, E. A., Grover, M. A., Harvey, S. C., Hud, N. V., Wartell, R. M., Fox, G. E., and Williams, L. Dean, “Secondary structure and domain architecture of the 23S and 5S rRNAs.”, Nucleic Acids Res, vol. 41, no. 15, pp. 7522-35, 2013.
2012
T. Maehigashi, Hsiao, C., Woods, K. Kruger, Moulaei, T., Hud, N. V., and Williams, L. Dean, “B-DNA structure is intrinsically polymorphic: even at the level of base pair positions.”, Nucleic Acids Res, vol. 40, no. 8, pp. 3714-22, 2012.
J. C. Bowman, Lenz, T. K., Hud, N. V., and Williams, L. Dean, “Cations in charge: magnesium ions in RNA folding and catalysis.”, Curr Opin Struct Biol, vol. 22, no. 3, pp. 262-72, 2012.
S. S. Athavale, J Gossett, J., Hsiao, C., Bowman, J. C., O'Neill, E., Hershkovitz, E., Preeprem, T., Hud, N. V., Wartell, R. M., Harvey, S. C., and Williams, L. Dean, “Domain III of the T. thermophilus 23S rRNA folds independently to a near-native state.”, RNA, vol. 18, no. 4, pp. 752-8, 2012.
A. E. Engelhart, Cafferty, B. J., C Okafor, D., Chen, M. C., Williams, L. Dean, Lynn, D. G., and Hud, N. V., “Nonenzymatic ligation of DNA with a reversible step and a final linkage that can be used in PCR.”, ChemBioChem, vol. 13, no. 8, pp. 1121-4, 2012.
S. S. Athavale, Petrov, A. S., Hsiao, C., Watkins, D., Prickett, C. D., J Gossett, J., Lie, L., Bowman, J. C., O'Neill, E., Bernier, C. R., Hud, N. V., Wartell, R. M., Harvey, S. C., and Williams, L. Dean, “RNA folding and catalysis mediated by iron (II).”, PLoS One, vol. 7, no. 5, p. e38024, 2012.
A. S. Petrov, Bernier, C. R., Hsiao, C., C Okafor, D., Tannenbaum, E., Stern, J., Gaucher, E., Schneider, D., Hud, N. V., Harvey, S. C., and Williams, L. Dean, “RNA-magnesium-protein interactions in large ribosomal subunit.”, J Phys Chem B, vol. 116, no. 28, pp. 8113-20, 2012.
2011
R. Buckley, C Enekwa, D., Williams, L. Dean, and Hud, N. V., “Molecular recognition of Watson-Crick-like purine-purine base pairs.”, Chembiochem, vol. 12, no. 14, pp. 2155-8, 2011.