Protein folding in the HP model on grid lattices with diagonals

DOI10.1016/J.DAM.2006.04.031MaRDI QIDQ867863zbMATH OpenOpenAlexFDO

Authors Hans-Joachim Böckenhauer, Dirk Bongartz

Publication date 19 February 2007

Published in Discrete Applied Mathematics (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.dam.2006.04.031

zbMATH Keywords

approximationcomputational biologyprotein foldingHP model

Mathematics Subject Classification ID

Applications of graph theory (05C90) Biochemistry, molecular biology (92C40) Computational methods for problems pertaining to biology (92-08)

Recommendations

• Mathematical Foundations of Computer Science 2004
• A weighted HP model for protein folding with diagonal contacts
• Approximate protein folding in the HP side chain model on extended cubic lattices
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• Experimental and Efficient Algorithms
• Protein Folding in 2D-Triangular Lattice Revisited
• Stochastic protein folding simulation in the three-dimensional HP-model
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• The HP model of protein folding: a challenging testing ground for Wang-Landau sampling

Cites work

• scientific article; zbMATH DE number 1775449 (Why is no real title available?)
• scientific article; zbMATH DE number 2119750 (Why is no real title available?)
• scientific article; zbMATH DE number 6472614 (Why is no real title available?)
• Approximate protein folding in the HP side chain model on extended cubic lattices
• LATIN 2004: Theoretical Informatics
• Mathematical Foundations of Computer Science 2004
• On the intractability of protein folding with a finite alphabet of amino acids
• Opportunities for combinatorial optimization in computational biology
• The algorithmics of folding proteins on lattices.

Cited in

(23)

• A weighted HP model for protein folding with diagonal contacts
• Approximate protein folding in the HP side chain model on extended cubic lattices
• scientific article; zbMATH DE number 2196284 (Why is no real title available?)
• Global energy minimisation and cotranslational protein folding of HP models
• Protein folding and self-avoiding walks. Polyhedral studies and solutions.
• A filter-and-fan approach to the 2D HP model of the protein folding problem
• Geometric Separators and Their Applications to Protein Folding in the HP-Model
• Approximation algorithms for three dimensional protein folding
• Approximation algorithms for three dimensional protein folding
• The HP model of protein folding: a challenging testing ground for Wang-Landau sampling
• Techniques for Speeding up H-Core Protein Fitting
• Simulations of toy proteins
• Automata, Languages and Programming
• Combinatorial algorithms for protein folding in lattice models: a survey of mathematical results
• Protein Folding in 2D-Triangular Lattice Revisited
• Stochastic protein folding simulation in the three-dimensional HP-model
• LATIN 2004: Theoretical Informatics
• scientific article; zbMATH DE number 2119750 (Why is no real title available?)
• scientific article; zbMATH DE number 1405793 (Why is no real title available?)
• Long proteins with unique optimal foldings in the H-P model
• Experimental and Efficient Algorithms
• 3D protein structure prediction
• Mathematical Foundations of Computer Science 2004

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