ISTRAIL LABORATORY :: BROWN UNIVERSITY
  115 Waterman Street • 5th floor • Box 1910 • Brown University • Providence, RI 02912













Brown University
Department of
Computer Science
The ProFOLDING Project

People: Fumei Lam, Gabriel Negara

Papers


1995 1  2  3  4
1997 1  2  3  4  5  6  7  8  9
1998 1  2  3  4  5  6  7  8 
1999 1  2  3  4 
2000 1  2  3  4  5  6  7  8  9
2001 1  2  3 
2002 1  2  3  4  5  6 
2003 1  2  3  4  5  6 
2004 1  2  3  4 
2005 1  2  3  4  5  6  7  8 
2006 1  2  3  4  5  6  7  8 
Models


Discrete Models for Protein Folding

  • Protein Structure Prediction (PSP)
  • Lattice Polymer Embedding (LPE)
  • Charged Graph Embedding (CGE)

  • Hydrophobic-Polar (HP)
    • HP-2D
    • HP-3D

    • HP Model on Lattices
    • HP Model with Side-Chains
    • Off-Lattice HP Model
    • HP Model on General Lattices
    • Accessible Surface Area Lattice Model

Benchmarks

HP-2D  |  HP-3D 		Algorithms

  • Approximation Algorithms
    • Performance-Guaranteed
    • No Performance-Guaranteed

  • Exact Algorithms
    • Enumerative
    • Constraint Programming
    • Integer Programming

  • Heuristics
    • Monte Carlo Algorithms
    • Genetic Algorithms
    • ACO Algorithms

Implementations