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Original Articles

Applications of Simulated Annealing to the Multiple-Minima Problem in Small Peptides

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Pages 721-735 | Received 13 Jun 1990, Published online: 21 May 2012

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Ramón Garduño-Juárez & LuisB. Morales. (2003) A Genetic Algorithm with Conformational Memories for Structure Prediction of Polypeptides. Journal of Biomolecular Structure and Dynamics 21:1, pages 65-87.
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LuisB. Morales, Ramón Garduño-Juárez & David Romero. (1992) The Multiple-Minima Problem in Small Peptides Revisited. The Threshold Accepting Approach. Journal of Biomolecular Structure and Dynamics 9:5, pages 951-957.
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Articles from other publishers (34)

Rojalin Pradhan, Sibarama Panigrahi & Prabhat K. Sahu. (2023) Conformational Search for the Building Block of Proteins Based on the Gradient Gravitational Search Algorithm (ConfGGS) Using Force Fields: CHARMM, AMBER, and OPLS-AA. Journal of Chemical Information and Modeling 63:2, pages 670-690.
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Rojalin Pradhan, Sibarama Panigrahi & Prabhat K. Sahu. (2022) Implementation of gradient gravitational search algorithm towards conformational search. Computational and Theoretical Chemistry 1208, pages 113550.
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Juan P. Sánchez-Hernández, Juan Frausto-Solís, Juan J. González-Barbosa, Diego A. Soto-Monterrubio, Fanny G. Maldonado-Nava & Guadalupe Castilla-Valdez. (2021) A Peptides Prediction Methodology for Tertiary Structure Based on Simulated Annealing. Mathematical and Computational Applications 26:2, pages 39.
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Fanny G. Maldonado-Nava, Juan Frausto-Solís, Juan Paulo Sánchez-Hernández, Juan Javier González Barbosa & Ernesto Liñán-García. 2018. Fuzzy Logic Augmentation of Neural and Optimization Algorithms: Theoretical Aspects and Real Applications. Fuzzy Logic Augmentation of Neural and Optimization Algorithms: Theoretical Aspects and Real Applications 449 459 .
Anylu Melo-Vega, Juan Frausto-Solís, Guadalupe Castilla-Valdez, Ernesto Liñán-García, Juan Javier González-Barbosa & David Terán-Villanueva. 2018. Fuzzy Logic Augmentation of Neural and Optimization Algorithms: Theoretical Aspects and Real Applications. Fuzzy Logic Augmentation of Neural and Optimization Algorithms: Theoretical Aspects and Real Applications 141 152 .
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Christoph Grebner, Johannes Becker, Svetlana Stepanenko & Bernd Engels. (2011) Efficiency of tabu-search-based conformational search algorithms. Journal of Computational Chemistry 32:10, pages 2245-2253.
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Luis German Perez Hernandez, Katya Rodriguez Vazquez & Ramon Garduno Juarez. (2010) Estimation of 3D Protein Structure by means of parallel Particle Swarm Optimization. Estimation of 3D Protein Structure by means of parallel Particle Swarm Optimization.
Svetlana Stepanenko & Bernd Engels. (2009) Tabu Search Based Strategies for Conformational Search. The Journal of Physical Chemistry A 113:43, pages 11699-11705.
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Juan Frausto-Solis, Xavier Soberon-Mainero & Ernesto Liñán-García. 2009. MICAI 2009: Advances in Artificial Intelligence. MICAI 2009: Advances in Artificial Intelligence 578 589 .
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Pooja Narang, Kumkum Bhushan, Surojit Bose & B. Jayaram. (2005) A computational pathway for bracketing native-like structures for small alpha helical globular proteins. Physical Chemistry Chemical Physics 7:11, pages 2364.
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Ali E. Abbas & Susan P. Holmes. (2004) Bioinformatics and Management Science: Some Common Tools and Techniques. Operations Research 52:2, pages 165-190.
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R Garduño-Juárez, L.B Morales & P Flores-Pérez. (2001) About singularities at the global minimum of empiric force fields for peptides. Journal of Molecular Structure: THEOCHEM 543:1-3, pages 277-284.
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Daniel R. Ripoll & Harold A. Scheraga. 2001. Encyclopedia of Optimization. Encyclopedia of Optimization 850 865 .
Avia Rosenhouse-Dantsker & Roman Osman. (2000) Application of the Primary Hydration Shell Approach to Locally Enhanced Sampling Simulated Annealing: Computer Simulation of Thyrotropin-Releasing Hormone in Water. Biophysical Journal 79:1, pages 66-79.
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L. B. Morales, R. Gardu�o-Ju�rez, J. M. Aguilar-Alvarado & F. J. Riveros-Castro. (2000) A parallel tabu search for conformational energy optimization of oligopeptides. Journal of Computational Chemistry 21:2, pages 147-156.
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Stephen R. Wilson, Weili Cui & Frank Guarnieri. 1995. Adaption of simulated annealing to chemical optimization problems. Adaption of simulated annealing to chemical optimization problems 351 367 .
Patrick Argos & Ruben Abagyan. (1994) The protein folding problem: Finding a few minimums in a near infinite space. Computers & Chemistry 18:3, pages 225-231.
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Ramón Garduño- Juárez & David Romero. (1994) Heuristic methods in conformational space search of peptides. Journal of Molecular Structure: THEOCHEM 308, pages 115-123.
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Thierry Montcalm, Weili Cui, Hong Zhao, Frank Guarnieri & Stephen R. Wilson. (1994) Simulated annealing of met-enkephalin: low energy states and their relevance to membrane-bound, solution and solid-state conformations. Journal of Molecular Structure: THEOCHEM 308, pages 37-51.
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Edgar Soulié. 1994. First European Congress of Mathematics. First European Congress of Mathematics 451 514 .
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Jean-François Gibrat, Junichi Higo, Vincent Collura & Jean Garnier. (1992) A simulated annealing method for modeling the antigen combining site of antibodies. ImmunoMethods 1:2, pages 107-125.
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Juan J. Perez, Gilda H. Loew & Hugo O. Villar. (2004) Conformational study of Met‐enkephalin in its zwitterionic form. International Journal of Quantum Chemistry 44:2, pages 263-275.
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Mark E. Snow. (2004) Powerful simulated‐annealing algorithm locates global minimum of protein‐folding potentials from multiple starting conformations. Journal of Computational Chemistry 13:5, pages 579-584.
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Juan J. Perez, Hugo O. Villar & Gilda H. Loew. (1992) Characterization of low-energy conformational domains for Met-enkephalin. Journal of Computer-Aided Molecular Design 6:2, pages 175-190.
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Frank Guarnieri & Stephen R. Wilson. (1992) Simulated annealing of rings using an exact ring closure algorithm. Tetrahedron 48:21, pages 4271-4282.
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Adrian Roitberg & Ron Elber. (1991) Modeling side chains in peptides and proteins: Application of the locally enhanced sampling and the simulated annealing methods to find minimum energy conformations. The Journal of Chemical Physics 95:12, pages 9277-9287.
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