Optimizing an Empirical Scoring Function for Transmembrane Protein Structure Determination

DOI10.1287/ijoc.1040.0102zbMath1239.90115OpenAlexW2113638561MaRDI QIDQ2890442

Genetha A. Gray, Ken Sale, Malin M. Young, Tamara G. Kolda

Publication date: 8 June 2012

Published in: INFORMS Journal on Computing (Search for Journal in Brave)

Full work available at URL: https://semanticscholar.org/paper/0939b46f5b2b7b2793fa33ee772b3eea63fd43ec

zbMATH Keywords

optimizationnonlinear programmingparallel algorithmcomputational biologyscoring functionprotein structure bundler

Mathematics Subject Classification ID

Applications of mathematical programming (90C90) Protein sequences, DNA sequences (92D20)

Related Items (9)

Asynchronous parallel hybrid optimization combining DIRECT and GSS ⋮ Random derivative-free algorithm for solving unconstrained or bound constrained continuously differentiable non-linear problems ⋮ Global optimization advances in mixed-integer nonlinear programming, MINLP, and constrained derivative-free optimization, CDFO ⋮ Derivative-free optimization: a review of algorithms and comparison of software implementations ⋮ Decomposition in derivative-free optimization ⋮ Inexact restoration method for nonlinear optimization without derivatives ⋮ A derivative-free algorithm for spherically constrained optimization ⋮ A geometric integration approach to nonsmooth, nonconvex optimisation ⋮ A wedge trust region method with self-correcting geometry for derivative-free optimization

Uses Software

• APPSPACK
• MPI/MPICH

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