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<!DOCTYPE html>
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<h1 id="project_title">Naoto Hori</h1>
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<h6><a href="index.html">[Back to Main]</a></h6>
<h3>Major conferences</h3>
<ol>
<li value="22">July 2021 The Nucleic Acids Forum 2021 (The Royal Society of Chemistry) [Online]<br>
<b>Mg<sup>2+</sup>-induced folding of functional RNA molecules studied by coarse-grained molecular simulations</b> </br>
○<u>Naoto Hori</u><br>
<br>
</li>
<li value="21">May 2021 The 26th Annual Meeting of the RNA Society [Online]<br>
<b>Cooperativity in Mg<sup>2+</sup>-induced folding of the central domain of 16S rRNA studied by coarse-grained molecular simulations</b> </br>
○<u>Naoto Hori</u>, Natalia A. Denesyuk, and D Thirumalai<br>
<br>
</li>
<li value="20">May 2020 The 25th Annual Meeting of the RNA Society [Online]<br>
<b>Kinetics and thermodynamics of Mg<sup>2+</sup>-induced folding of <i>Azoarcus</i> ribozyme revealed by molecular simulations</b> </br>
○<u>Naoto Hori</u>, Natalia A. Denesyuk, and D Thirumalai<br>
<br>
</li>
<li value="19">Feb. 2017 Biophysical Society 61th Annual Meeting [New Orleans, US]<br>
<b>Multistep folding kinetics of group I intron RNA studied by Mg<sup>2+</sup>-concentration jump simulations</b> <a href="http://dx.doi.org/10.1016/j.bpj.2016.11.2006" target="_blank">[Abstruct]</a></br>
○<u>Naoto Hori</u>, Natalia A. Denesyuk, and D Thirumalai<br>
<br>
</li>
<li value="18">Mar. 2016 Biophysical Society 60th Annual Meeting [Los Angeles, US]<br>
<b>Mechanical force and salt effects on the thermodynamics of a frameshifting RNA pseudoknot.</b>
<a href="http://dx.doi.org/10.1016/j.bpj.2015.11.1961" target="_blank">[Abstruct]</a><br>
○<u>Naoto Hori</u>, Natalia A. Denesyuk, and D Thirumalai<br>
<br>
</li>
<li value="17">Nov. 2013 The 49th Annual Meeting of the Biophysical Society of Japan [Kyoto, Japan]<br>
<b>Molecular simulation study on signaling control in yeast MAPK pathway</b></br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="16">Feb. 2013 Biophysical Society 57th Annual Meeting [Pennsylvania, US]<br>
<b>Molecular dynamics of tRNA bound to translating ribosome studied by coarse-grained simulations</b></br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="15">Sep. 2012 The 50th Annual Meeting of the Biophysical Society of Japan [Nagoya, Japan]<br>
<b>Dynamical motions of tRNA and ribosome complex during translation elongation studied by coarse-grained molecular simulations</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="14">Jul. 2012 The 14th Annual Meeting of the RNA Society of Japan [Sendai, Japan]<br>
<b>Mechanisms and Relation of Ribosomal Subunit Rotation and tRNA Hybrid State Formation Studied by Molecular Simulations</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="13">Feb. 2012 Biophysical Society 56th Annual Meeting [San Diego, US]<br>
<b>Mechanisms and Relation of Ribosomal Subunit Rotation and tRNA Hybrid State Formation Studied by Molecular Simulations</b> <a href="http://dx.doi.org/10.1016/j.bpj.2011.11.404" target="_blank">[Abstruct]</a><br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="12">Jan. 2012 The 5th International Symposium on Molecular Science of Fluctuations toward Biological Functions [Nara, Japan]<br>
<b>Fluctuations of Transfer RNAs in the Ribosome Cavity Studied by Coarse-Grained Simulations</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="11">Sep. 2011 The 49th Annual Meeting of the Biophysical Society of Japan [Himeji, Japan]<br>
<b>Coarse-grained molecular simulation study of ribosomal translocation dynamics</b> <u><a href="http://ci.nii.ac.jp/naid/110008903151/en" target="_blank">CiNii</a></u><br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="10">Sep. 2011 The 2nd international symposium on "Multi-scale Simulations of Biological and Soft Materials" (MSBSM 2011) [Kyoto, Japan]<br>
<b>Coarse-grained model of RNA-protein complexes derived by multiscale simulation method</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="9">Jun. 2011 The 16th Annual Meeting of the RNA Society [Kyoto, Japan]<br>
<b>Ribosome and tRNA Dynamics during Elongation Studied by Coarse-Grained Molecular Simulations</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="8">Jun. 2011 The 11th Annual Meeting of the Protein Science Society of Japan [Osaka, Japan]<br>
<b>Coarse-grained simulation study of ribosome and tRNA dynamics</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="7">Sep. 2010 The 48th Annual Meeting of the Biophysical Society of Japan [Sendai, Japan]<br>
<b>Coarse-grained model of RNA-protein complexes based on all-atom simulations</b> <u><a href="http://ci.nii.ac.jp/naid/110008102373/en" target="_blank">CiNii</a></u><br>
○<u>Naoto Hori</u>, Wenfei Li, and Shoji Takada<br>
<br>
</li>
<li value="6">Jun. 2010 The 10th Annual Meeting of the Protein Science Society of Japan [Sapporo, Japan]<br>
<b>Coarse-grained model of RNA-protein complexes based on all-atom simulations</b> <br>
○<u>Naoto Hori</u>, Wenfei Li, and Shoji Takada<br>
<br>
</li>
<li value="5">Nov. 2009 The 47th Annual Meeting of the Biophysical Society of Japan [Tokushima, Japan]<br>
<b>Replica exchange simulations applied for coarse-grained models of giant protein-nucleic acid complex</b> <u><a href="http://ci.nii.ac.jp/naid/110008101398/en" target="_blank">CiNii</a></u><br>
○<u>Naoto Hori</u>, Hiroo Kenzaki, and Shoji Takada<br>
<br>
</li>
<li value="4">Dec. 2007 The 45th Annual Meeting of the Biophysical Society of Japan [Yokohama, Japan]<br>
<b>Network and energy landscape of a folding protein revealed by multicanonical fragment assembly simulations</b> <u><a href="http://ci.nii.ac.jp/naid/110006562144/en" target="_blank">CiNii</a></u><br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="3">Sep. 2007 The 62th Annual Meeting of the Physical Society of Japan [Sapporo, Japan]<br>
<b>Energy landscape of folding proteins revealed by Wang-Landau sampling</b> <u><a href="http://ci.nii.ac.jp/naid/110007143253/en" target="_blank">CiNii</a></u><br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="2">Dec. 2006 Discussion on "Theory and Simulation of Biomolecular Nano-machine" [Maiko, Japan]<br>
<b>Energy landscape and network of protein folding revealed by large-scale multicanonical fragment assembly simulations</b> <br>
○<u>Naoto Hori</u> and Shoji Takada<br>
<br>
</li>
<li value="1">Nov. 2006 The 5th East Asian Biophysics Symposium & 44th Annual Meeting of the Biophysical Society of Japan [Okinawa, Japan]<br>
<b>Energy landscape of folding proteins revealed by large-scale multicanonical fragment assembly simulations</b> <u><a href="http://ci.nii.ac.jp/naid/110006194059/en" target="_blank">CiNii</a></u><br>
○<u>Naoto Hori</u>, George Chikenji, and Shoji Takada</li>
</ol>
<h3>Other Meetings</h3>
<ol>
<li value="3">Jul. 2010 The 29th Study Meeting on Theory of Protein and Nucleic Acid Structure [Tsukuba, Japan]<br>
<b>A development of coarse-grained simulation model of RNA</b> <br>
○<u>Naoto Hori</u><br>
<br>
</li>
<li value="2">Jul. 2009 The 28th Study Meeting on Theory of Protein and Nucleic Acid Structure [Kobe, Japan]<br>
<b>A Study on Energy Landscape of Protein Folding</b> <br>
○<u>Naoto Hori</u><br>
<br>
</li>
<li value="1">Nov. 2006 CASP7: "7th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction" [Asilomar, US]<br>
<b>Template-free Prediction by Fragment Assembly with SimFold Energy Function at CASP7</b> <br>
Sung-Joon Park, <u>Naoto Hori</u>, Kei-ichi Okazaki, and Shoji Takada <br>
<i>CASP7 Abstracts</i> (2006) 99-101 <u><a href="https://docs.google.com/viewer?a=v&pid=explorer&chrome=true&srcid=0B88zW4xyWxFDMmYyMzcxYTEtMTg1Ny00ZDMwLWE4NDktNWNhYWQ4NWNkOTNi&hl=ja&authkey=CMTywOwH" target="_blank">PDF</a></u></li>
</ol>
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