Naoto Hori

Postdoctral Fellow at Thirumalai group
Department of Chemistry, University of Texas at Austin

Research interests

• RNA folding, structures and functions
• Macromolecular assembly (RNA-protein complexes, in particular)
• Translation system in the cell
• Computational methods and algorithms
• Palatability, functions and recipes of Natto

Publications

7. Samanta, H.S. ; Zhuravlev, P.I. ; Hinczewski, M. ; Hori, N. ; Chakrabarti, S. ; Thirumalai, D.
   Protein Collapse is Encoded in the Folded State Architecture.
   Soft Matter (2017) 13(19): 3622-3638 arXiv:1608.06971
6. Hori, N. ; Denesyuk, N.A. ; Thirumalai, D.
   Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension
   J. Mol. Biol. (2016) 428(14): 2847-2859   arXiv:1604.08278
5. Tanaka, T ; Hori, N. ; Takada, S.
   How co-translational folding of multi-domain protein is affected by elongation schedule: Molecular simulations
   PLoS Comput. Biol. (2015) 11(7): e1004356  [PDF]
4. Hori, N. ; Takada, S.
   Coarse-grained structure-based model for RNA-protein complexes developed by fluctuation matching
   J. Chem. Theory Comput. (2012) 8(9): 3384-3394
3. Kenzaki, H. ; Koga, N. ; Hori, N. ; Kanada, R; Li, W. ; Okazaki, K. ; Yao, X.Q. ; Takada, S.
   CafeMol: A coarse-grained biomolecular simulator for simulating proteins at work
   J. Chem. Theory Comput. (2011) 7(6): 1979-1989
2. Li, W. ; Yoshii, H. ; Hori, N. ; Kameda, T. ; Takada, S.
   Multiscale methods for protein folding simulations
   Methods (2010) 52: 106-114
1. Hori, N. ; Chikenji, G. ; Berry, R.S. ; Takada, S.
   Folding energy landscape and network dynamics of small globular proteins
   Proc. Natl. Acad. Sci. USA (2009) 106: 73-78  [PDF]

Presentations

See here

Academic & Professional Experience

• Jan 2016 - Present, Postdoctral Fellow, University of Texas at Austin
• Feb 2014 - Dec 2015, Research Associate, University of Maryland
• Apr 2013 - Dec 2013, Postdoctoral Fellow, Kyoto University
• Apr 2010 - Mar 2013, Research Fellow, Japan Society for the Promotion of Science
• Apr 2009 - Mar 2010, Research Associate, Kyoto University
• Apr 2008 - Mar 2009, Software Engineer, Kozo Keikaku Engineering Inc.

Education

• Apr 2010 - Mar 2013, Ph.D. in Biophysics, Kyoto University (Prof. Takada's lab.)
• Apr 2006 - Mar 2008, M.Sc. in Chemistry, Kobe University
• Apr 2002 - Mar 2006, B.Sc. in Chemistry, Kobe University