86 citations · 175 across the 7 of their papers we have counts for
7 papers
Alpha helices are more evolutionarily robust to environmental perturbations than beta sheets: Bayesian learning and statistical mechanics for protein evolution
Tomoei Takahashi, George Chikenji, Kei Tokita +1
How typical elements that shape organisms, such as protein secondary structures, have evolved, or how evolutionarily susceptible/resistant they are to environmental changes, are si…
The cavity method to protein design problem
Tomoei Takahashi, George Chikenji, Kei Tokita
In this study, we propose an analytic statistical mechanics approach to solve a fundamental problem in biological physics called protein design. Protein design is an inverse proble…
Lattice protein design using Bayesian learning
Tomoei Takahashi, George Chikenji, Kei Tokita
Protein design is the inverse approach of the three-dimensional (3D) structure prediction for elucidating the relationship between the 3D structures and amino acid sequences. In ge…
Cooperativity and modularity in protein folding
Masaki Sasai, George Chikenji, Tomoki P. Terada
A simple statistical mechanical model proposed by Wako and Sait has explained the aspects of protein folding surprisingly well. This model was systematically applied t…
Multi-Self-Overlap Ensemble for protein folding: ground state search and thermodynamics
George Chikenji, Macoto Kikuchi, Yukito Iba
Long chains of the HP lattice protein model are studied by the Multi-Self-Overlap Ensemble(MSOE) Monte Carlo method, which was developed recently by the authors. MSOE successfully…
The Origin of the Designability of Protein Structures
Rie Tatsumi, George Chikenji
We examined what determines the designability of 2-letter codes (H and P) lattice proteins from three points of view. First, whether the native structure is searched within all pos…
Simulation of Lattice Polymers with Multi-Self-Overlap Ensemble
Yukito Iba, George Chikenji, Macoto Kikuchi
A novel family of dynamical Monte Carlo algorithms for lattice polymers is proposed. Our central idea is to simulate an extended ensemble in which the self-avoiding condition is sy…