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Course Criteria
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1.00 Credits
Credits: 1 Seminar presentations in a variety of areas of bioinformatics and computational biology by COS faculty, staff, advanced PhD students, and professional visitors. Prerequisites Graduate standing. Notes May be repeated for credit. Hours of Lecture or Seminar per week 1 Hours of Lab or Studio per week 0
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1.00 Credits
Credits: 1 Examines ethical issues in scientific research, reflecting on purpose and reviewing foundational principles for evaluating ethical issues. Provides skills for survival in scientific research through training in moral reasoning and teaching of responsible conduct. Students learn to apply critical-thinking skills to design, execution, and analysis of experiments and analysis of ethical issues in research, including use of animals and humans, standards in computer community, and research fraud. Guidelines for data ownership, manuscript preparation, and conduct of people in authority may be presented and discussed. Prerequisites Permission of instructor. Hours of Lecture or Seminar per week 1 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Fundamental methods for analyzing nucleic acid and protein sequences, including pairwise and multiple alignment, database search methods, profile searches, and phylogenetic inference. Development of probabilistic tools, including hidden Markov models and optimization algorithms. Survey of current software tools. Prerequisites BINF 702 or previous courses in programming, molecular biology, and probability, or permission of instructor. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Computational methods for analyzing, classifying, and predicting three-dimensional protein structures. Covers theoretical approaches, techniques, and computational tools for protein structure analysis. Prerequisites Permission of instructor, or previous courses in molecular biology, biochemistry, and computer programming. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Surveys computational tools and techniques to study whole genomes, and explores biological basis of genome analysis algorithms. Topics include genome mapping, comparative genomics, and functional genomics. Prerequisites BINF 730 or previous courses in biology, numerical methods, and programming; or permission of instructor. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Analyzes gene expression data. Topics include cluster analysis and visualization of expression data, inference of genetic regulatory networks, and theoretical models of genetic networks. Prerequisites Programming experience and course in molecular biology, or permission of instructor; S-Plus or Matlab experience may be helpful. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Topics include algorithm design, complex data structures, object oriented programming, relational databases, designing modules, and graphics and web programming. Students complete a bioinformatics programming project. Prerequisites BINF 634, or permission of instructor. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Selected topics in bioinformatics not covered in fixed-content bioinformatics courses. Prerequisites Permission of instructor. Notes May be repeated for credit. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Introduces biophysics, focusing on physical and chemical concepts and their relation to rapidly expanding interdisciplinary interfaces among biology, chemistry, and physics. Reveals multiscale nature of biophysics, and includes exploration of macroscopic and microscopic applications. Prerequisites Undergraduate courses in general physics, calculus, and biology. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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3.00 Credits
Credits: 3 Details computational methods in biomolecular simulations, such as molecular dynamics and Monte Carlo algorithms. Special emphasis given to practical applications. Reviews most recent advances in biomolecular simulations. Prerequisites BINF 690 and 701, and knowledge of computer programming language; or permission of instructor. Hours of Lecture or Seminar per week 3 Hours of Lab or Studio per week 0
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