|1||Intro 1: Course overview and introduction to the computational side of computational biology. Why use Perl & Mathematica? Write and run simple scripts. We will also assign sections addressing Biology, computing, and advanced topics. Questionaires due.|
Intro 2: Biological Side of Computational Biology; Central Dogma; Comparative Genomics; Models & Real World Applications.
Note: Please take your initial observations about Problem Set#1 to you first section meetings (i.e. check that you actually have access to Perl & Mathematica).
DNA 1: Genome Sequencing, Polymorphisms, Populations, Statistics, Pharmacogenomics; Databases.
Note: Problem Set #1 is due at the start of class. (Answers will be posted 48 hrs later.)
|4||DNA 2: Dynamic Programming, Blast, Multi-alignment, HiddenMarkovModels.|
RNA 1: Microarrays, Library Sequencing and Quantitation Concepts.
Note: Problem Set #2 is due.
|6||RNA 2: Clustering by Gene or Condition and Other Regulon Data Sources Nucleic Acid Motifs; The Nature of Biological “proofs.”|
|7||Proteins 1: 3D Structural Genomics, Homology, Catalytic and Regulatory Dynamics, Function & Drug Design.|
|8||Proteins 2: Mass Spectrometry, Post-synthetic Modifications, Quantitation of Proteins, Metabolites, & Interactions.|
Networks 1: Systems Biology, Metabolic Kinetic & Flux Balance Optimization Methods.
Note: Problem Set #4 is due. (#5 will be available but not due until lecture 14.)
|10||Networks 2: Molecular Computing, Self-assembly, Genetic Algorithms, Neural Networks.|
|11||Networks 3: The Future of Computational Biology: Cellular, Developmental, Social, Ecological & Commercial Models.|
|12||Project Presentations; All written project reports and overhead slides (for presentations) due.|
|14||Project Presentations; Problem Set #5 due.|
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