Modeling & Simulation

Visual and numerical modeling and simulation play important roles in the analysis and prediction of protein and nucleic acid sequence and 3D structure, in the calculation of molecular dynamics, and in the simulation of specific biochemical mechanisms, among other important tasks.

Protein Structure Prediction From Primary Sequence. Linda Ellis and Kim-Hung Chow. Previously published in Biophysics Textbook Online (BTOL).

http://www.biophysics.org/education/ellis.pdf

Introduction to Continuum Electrostatics, with Molecular Applications. Mike Gilson. Previously published in Biophysics Textbook Online (BTOL).

http://www.biophysics.org/education/gilson.pdf

A Molecular Modeler's Guide to Statistical Mechanics. Daniel A. Beard. Previously published in Biophysics Textbook Online (BTOL).

http://www.biophysics.org/education/beard.pdf

Mathematical Models in Biophysics. Galina Riznichenko. Previously published in Biophysics Textbook Online (BTOL).

http://www.biophysics.org/education/galina.pdf

Introduction to Macromolecular Simulation. Peter Steinbach. Previously published in Biophysics Textbook Online (BTOL).

http://www.biophysics.org/education/steinbach.pdf