IntrotoBioinformatics.pdf - Intro to Bioinformatics...

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Intro to Bioinformatics Syllabus Release v10 Christopher Lee August 25, 2017 Contents 1 Schedule 2 2 Summary 3 3 Textbooks 3 4 Prerequisites 3 5 Grading 4 6 Course Topics 4 Computer Science CM121, CM221, Bioinformatics 260A, Chemistry 160A / 260A Fall quarter 2017 Lecture: Kinsey Science Teaching Pavilion 1200B, Mon., Wed. 12 - 2 pm Discussion: Kinsey Science Teaching Pavilion 1200B, Fri. 12 - 2 pm. Instructor: Christopher Lee, Depts. of Chemistry, Computer Science • Contact: [email protected] ; TEL 825-7374 TA: Yang Pan Course Website: CCLE Revised Aug. 24, 2017
1 Schedule Table 1: Course Schedule Date Lecture Due HW topics Reading Due 09/29/17 overview, bio background JP3 10/02/17 chain rule, Bayes Law disease carrier? Lee-inference 10/04/17 probability continued JP8.1-3, Lee-probability 10/06/17 MT Bayes 10/09/17 modeling snp scoring Lee-Infographs 10/11/17 modeling 10/13/17 MT SNP 10/16/17 modeling PP SNP dna forensics 10/18/17 modeling 10/20/17 MT forensic 10/23/17 hypothesis testing Quiz: modeling phenoseq Lee-hypotest 10/25/17 hypothesis testing GMT topic 10/27/17 MT phenoseq 10/30/17 hypothesis testing PP phenoseq two bird island 11/01/17 hypothesis testing 11/03/17 MT hypotest 11/06/17 viterbi alignment Quiz: hypotest seq. alignment JP6.1 - 6.9 11/08/17 GMT questions 11/10/17 VETERANS DAY HOLIDAY MT align 11/13/17 HMM intro, viterbi, basic FB PP align “casino royale” JP11.1-4, Lee-HMM 11/15/17 HMM sequence modeling Lee-FB 11/17/17 MT ODCfb 11/20/17 FB continued, HMM profiles PP ODCfb DNA motifs JP 11.5 11/22/17 alignment posteriors

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