||Pereira, M.J.B., Behera, V. and Walter, N.G.* (2010) Nondenaturing purification of co-transcriptionally folded RNA avoids common folding heterogeneity. PLoS ONE, in press.
Ditzler, M.A., Šponer, J. and Walter, N.G.* (2009) Molecular dynamics suggest multifunctionality of an adenine imino group in acid-base catalysis of the hairpin ribozyme. RNA 15, 560-575.
de Silva, C. and Walter, N.G.* (2009) Leakage and slow allostery observed at the single molecule level limit performance of an engineered drug sensing aptazyme. RNA 15, 76-84.
Sefcikova, J., Krasovska, M.V., Šponer, J. and Walter, N.G. (2007) The genomic HDV ribozyme utilizes a dynamic U-turn motif distinctly from the hammerhead ribozyme to accomplish fast site-specific catalysis. Nucleic Acids Res. 35, 1933–1946.
McDowell, S.E., Špačková, N., Šponer, J. and Walter, N.G. (2007) Molecular dynamics simulations of RNA: An in silico single molecule approach. Biopolymers 85, 169-184.
Walter, N.G. (2007) Future of biomedical sciences: Single molecule microscopy. Biopolymers 85, 103-105.
Rhodes, M.M., Réblová, K., Šponer, J. and Walter, N.G. (2006) Trapped water molecules are essential to structural dynamics and function of a ribozyme. Proc. Natl. Acad. Sci. USA 103, 13380-13385.
Krasovska, M.V., Sefcikova, J., Réblová, K., Schneider, B., Walter, N.G. and Šponer, J. (2006) Cations and hydration in catalytic RNA: Molecular dynamics of the Hepatitis Delta Virus ribozyme. Biophys. J. 91, 626-638.
||Fu, J.*, Yang, Y., Johnson-Buck, A., Liu, M., Liu, Y., Walter, N.G., Woodbury, N.W. and Yan, H.* (2014) Multi-enzyme complexes on DNA scaffolds capable of substrate channeling with an artificial swinging arm. Nat. Nanotechnol. 9, 531-536.
Pitchiaya, S., Custer, T.C., Heinicke, L.A. and Walter, N.G.* (2014) Single molecule fluorescence approaches shed light on intracellular RNAs. Chem. Rev. 114, 3224-3265.
Walter, N.G.* and Bustamante C.J. (2014) Introduction to single molecule imaging and mechanics: seeing and touching molecules one at a time. Chem. Rev. 114, 3069-3071.
Krishnan, R., Blanco, M.R., Kahlscheuer, M.L., Abelson, J., Guthrie, C. and Walter, N.G.* (2013) Biased Brownian ratcheting leads to pre-mRNA remodeling and capture prior to first-step splicing. Nat. Struct. Mol. Biol. 20, 1450-1457.
Ma, J., Liu, Z., Michelotti, N., Pitchiaya, S., Veerapaneni, R., Androsavich, J.R., Walter, N.G.* and Yang, W.* (2013) High-resolution three-dimensional mapping of mRNA export through the nuclear pore. Nat. Commun. 4, 2414, doi:10.1038/ncomms3414.
Johnson-Buck, A., Nangreave, J., Jiang, S., Yan, H. and Walter, N.G.* (2013) Multifactorial modulation of binding and dissociation kinetics on two-dimensional DNA nanostructures. Nano Lett., 13, 2754-2759.
Todd, G.C. and Walter, N.G.* (2013) Secondary structure of bacteriophage T4 gene 60 mRNA: implications for translational bypassing. RNA, 19, 685-700.
Pitchiaya, S., Androsavich, J.R. and Walter, N.G.* (2012) Intracellular single molecule microscopy reveals time and mRNA dependent microRNA assembly. EMBO rep. 13, 709-715.
Androsavich, J.R., Chau, B.N., Bhat, B., Linsley, P.S. and Walter, N.G.* (2012) Disease-linked microRNA-21 exhibits drastically reduced mRNA binding and silencing activity in healthy mouse liver. RNA 18, 1510-1526.
Rawlings, R.A., Krishnan, V. and Walter, N.G.* (2011) Viral RNAi suppressor reversibly binds siRNA to outcompete Dicer and RISC via multiple-turnover. J. Mol. Biol. 408, 262-276.
Lund, K., Manzo, A.J., Dabby, N., Michelotti, N., Johnson-Buck, A., Nangreave, J., Taylor, S., Pei, R., Stojanovic, M.N.*, Walter, N.G.*, Winfree, E.*, and Yan, H.* (2010) Molecular robots guided by prescriptive landscapes. Nature 465, 206-210. [Highlighted in Nature News & Views 465 (2010) 167-168 and as UM News Release May 12, 2010]
Abelson, J., Blanco, M., Ditzler, M.A., Fuller, F., Aravamudhan, P., Wood, M., Villa, T., Ryan, D.E., Pleiss, J.A., Maeder, C., Guthrie, C. and Walter, N.G.* (2010) Conformational dynamics of single pre-mRNA molecules in spliceosome assembly. Nat. Struct. Mol. Biol. 4, 504-512. [Highlighted as UM News Release March 21, 2010]
Ditzler, M.A., Otyepka, M., Šponer, J.* and Walter, N.G.* (2010) Molecular dynamics and quantum mechanics of RNA: Conformational and chemical change we can believe in. Acc. Chem. Res. 40, 40-47.
Walter, N.G., Huang, C., Manzo, A.J. & Sobhy, M.A. (2008). Do-it-yourself guide: How to use the modern single molecule toolkit. Nat. Methods 5, 475-489. Editorial comments in Nat. Methods 5 (2008) 457.
Walter, N.G. and Al-Hashimi, H.M. (2008) RNA dynamics: It’s about time. Curr. Opin. Struct. Biol. 18, 321-329. Editorial comments in Curr. Opin. Struct. Biol. 18 (2008) 279-281.
Walter, N.G. (2007) Ribozyme catalysis revisited: Is water involved? Mol. Cell 28, 923-929.
Ditzler, M.A., Alemán, E.A., Rueda, D. and Walter, N.G. (2007) Focus on function: Single molecule RNA enzymology. Biopolymers 87, 302-316.
Hoerter, J.A.H., and Walter, N.G. (2007) Chemical modification resolves the asymmetry of siRNA strand degradation in human blood serum. RNA 13, 1887-1893.
Liu, S., Bokinsky, G., Walter, N.G. and Zhuang, X. (2007) Dissecting the multi-step reaction pathway of an RNA enzyme by single-molecule kinetic “fingerprinting”. Proc. Natl. Acad. Sci. USA 104, 12634-12639.