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### CS321

Course: ENGL 2, Fall 2009
School: Cornell
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Word Count: 347

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321 ENGRD / CS 321 / BIOBM 321 Numerical methods in computational molecular biology Catalogue description: Fall. 3 credits. Prerequisites: at least one course in calculus such as MATH 106, 111, or 191 and a course in linear algebra such as MATH 221 or 294 or BTRY 417. COM S 100 or equivalent and some familiarity with iteration, arrays, and procedures. An introduction to numerical computing using Matlab organized...

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321 ENGRD / CS 321 / BIOBM 321 Numerical methods in computational molecular biology Catalogue description: Fall. 3 credits. Prerequisites: at least one course in calculus such as MATH 106, 111, or 191 and a course in linear algebra such as MATH 221 or 294 or BTRY 417. COM S 100 or equivalent and some familiarity with iteration, arrays, and procedures. An introduction to numerical computing using Matlab organized around five applications: the analysis of protein shapes, dynamics, protein folding, score functions, and field equations. Students become adept at plotting, linear equation solving, least squares fitting, and cubic spline interpolation. More advanced problem-solving techniques that involve eigenvalue analysis, the solution of ordinary and partial differential equations, linear programming, and nonlinear minimization will also be treated. The goal of the course is to develop a practical computational expertise with Matlab and to build mathematical intuition for the problems of molecular biology. Textbook(s) and other required materials: Introduction to scientific computing : A matrix-Vector Approach Using Matlab. Charles F. Van Loan, Prentice Hall. Course objectives: Introduce students to problems in computational molecular biology and their solutions, using Topics Matlab. covered: Numerical Analysis Linear interpolations Linear equations Cubic splines Least square fit Lagrange multipliers Matrix diagonalization Singular value decomposition Manipulation of characters in Matlab Dynamic programming Steepest Descent Optimization Conjugate gradient Biology (applications) Plotting protein structures Comparing and overlapping protein structures Sequence alignment Optimization and protein folding Class/laboratory schedule: Two 50 minutes lectures and one 50 minutes section Course outcomes and their relation to ABET program outcomes a-k: Upon completion of the course the student will: 1. Have general understanding of basic numerical analysis operations in Matlab. (k) 2. Be able to analyze biological similarities on ...

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