CSE 427: Homework

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Homework: #0: Specification #1: Specification, Results #2: Specification, Results, Alignment of human query and 7 closest matches, Alignment of human query and 10 close matches #3: Specification, Results #4: Specification 1/5 Reading Assignment: Basics of Molecular Biology (class handout) Molecular Biology for Computer Scientists, a primer by Lawrence Hunter 1/7 Reading Assignment: Pairwise sequence alignment: Lectures 3-5 from CSE 527 1/19 Reading Assignment: Overview of the BLAST Algorithm BLAST statistics: Stephen Altschul's primer 1/21 Reading Assignment: Sections 6.5.1-6.5.2 from Ewens and Grant's book. 1/26 Reading Assignment: Multiple Sequence Alignment: Sections 6.1-6.4 from CSE 527 1/28 Reading Assignment: Overview of progressive alignment Algorithms for Locating Extremely Conserved Elements in Multiple Sequence Alignments 2/2 Reading Assignment: Section on phylogenetic trees in Lecture 4 from Michael Brudno's lecture notes 2/11 Reading Assignment: Lecture notes on Markov models 2/18 Reading Assignment: Lecture notes on profile HMMs 2/23 Reading Assignment: RNA secondary structure prediction: Lectures 16-17 from CSE 527

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