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Lecture Date Topic Notes All notes below as one technical report ps Table of Contents ps 1 1/4 Basics of Molecular Biology Michael Gates ps LaTeX 2 1/6 Basics of Molecular Biology (continued) Tory McGrath ps LaTeX 3 1/11 Introduction to Sequence Similarity Martin Tompa ps 4 1/13 Alignment by Dynamic Programming Martin Tompa ps 5 1/18 Local Alignment, and Gap Penalties Martin Tompa ps 6 1/20 Multiple Sequence Alignment Martin Tompa ps 7 1/25 Finding Instances of Known Sites Elisabeth Rosenthal ps 8 1/27 Relative Entropy Anne-Louise Leutenegger ps 9 2/1 Relative Entropy and Binding Energy Neil Spring ps 10 2/8 Finding Instances of Unknown Sites Dylan Chivian ps 11 2/10 Correlation of Positions in Sequences Tammy Williams ps 12 2/15 Maximum Subsequence Problem Mathieu Blanchette ps 13 2/17 Markov Chains Jonathan Schaefer ps 14 2/22 Using Interpolated Context Models to Find Genes Gretta Bartels ps 15 2/24 Start Codon Prediction Mingzhou Song ps 16 2/29 RNA Secondary Structure Prediction Matthew Cary ps 17 3/2 RNA Secondary Structure Prediction (continued) Don Patterson ps 18 3/7 Speeding Up Internal Loop Computations Kellie Plow ps
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Introducing Algorithms to Nonspecialists (Word document, written retrospectively by a nonspecialist)
CSE 590BI Webs (earlier version of CSE 527): Winter 1996, Winter 1998
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