IBS 520

Introduction to Computational Biology and Bioinformatics

MOLECULAR GRAPHICS LINKS FOR STUDY& REVIEW
General Biochemistry: Exploring Molecular Structure

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Date Topic Instructor
8/30 Introduction Wilkinson
8/31 Preview: Chemical Equilibria Jones & Russell
9/1 Thermodynamics and Equilibrium Wilkinson
9/3 Protein Properties and Purification  Wilkinson
9/6 Labor Day - No Class

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9/7 Preview: Amino Acids and Peptide Bonds
Advanced Topic: Computation and Graphical Methods mdl2.gif (1288 bytes)
Jones & Haremen
Gernert
Gernert
9/8 Primary Structure and peptide chains  Hodel
9/10 Secondary and Tertiary Structure  Hodel
9/13 Protein Folding and Domain Structure  Hodel
9/14 Preview: Chemical Kinetics
Advanced Topic 1: Protein Folding
Advanced Topic 2: Prions and Inclusion Body Disease
Jones & Russell
Hodel
Chernoff
9/15 Hemoglobin Structure and Function Hodel
9/17 MM and the Steady State Approximation Edmondson
9/20 Two Substrate Reactions and Inhibitors Edmondson
9/21 Preview: Nucleosides and Nucleotides
Advanced Topic 1: Enzyme Inhibitors as Drugs
Advanced Topic 2: Receptors and Transport Processes
Benki & Herreman
Edmondson
Traynelis
9/22 Specificity and Rate Enhancement Edmondson
9/24 Selected Enzyme Mechanisms Edmondson
9/27 Structural Properties of Nucleic Acids Doetsch
9/28 Examination 1

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9/29 Nucleic Acid Manipulation and Analysis Doetsch
10/1 DNA Sequencing Doetsch
10/4 Topology, Chromatin Structure Doetsch
10/5 Preview: Carbohydrates and Lipids
Advanced Topic 1: DNA Damage, Repair, and Cancer
Advanced Topic 2: Specialized DNA Sequences
Benki & Harreman
Doetsch
Vertino
10/6 DNA Repair Doetsch
10/8 Carbohydrate Structure and Properties Stevens
10/11 Fall Break - No Class

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10/12 Fall Break - No Class

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10/13 Carbohydrate Structure and Properties Stevens
10/15  Lipid Structure and Properties  Stevens 
10/18 Membranes, Fluid Mosaic Model  Stevens
10/19 Preview: Replication
Advanced Topic 1: Membrane Domains and Microdomains
Advanced Topic 2: Lipid Homeostasis and Trafficking
Russell & Jones
Stevens
Nichols
10/20 Biological Membranes and Lipoproteins Stevens
10/22 Enzymes of DNA Metabolism Shadel
10/25 Prokaryotic Replication  Shadel
10/26 Preview: Recomb./Repair
Advanced Topic 1: p53 and Timing of Replication
Advanced Topic 2: Recombination and Immunoglobulin
Russell&Jones&Benki&Harreman
Van Meir
Seide
10/27 Eukaryotic Replication Shadel
10/29 Recombination  Shadel
11/1 Recombination  Shadel
11/2 Examination 2

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11/3 Biochemical Definition of the Gene Reines
11/5 Functions of RNA and Polymerases Reines
11/8 Prokaryotic Gene Expression  Reines
11/9 Preview: Bacteria and Phage
Advanced Topic 1: DNA Binding Proteins
Advanced Topic 2: Processing of mRNA's
Benki & Jones
Price
Reines
11/10 Eukaryotic Gene Expression  Reines
11/12 The Ribosome  Warren
11/15 Initiation Warren
11/16 Preview: Molecular Genetics I
Advanced Topic 1: Nuclear Transport
Advanced Topic 2: Translational Control
Benki & Harreman
Corbett
Hagadorn
11/17 Elongation/Termination Warren
11/19 Genome Anatomy and Gene Mapping Fridovich-Keil
11/22 Recombinant DNA I Fridovich-Keil
11/23 Preview: Molecular Genetics II
Advanced Topic 1: Positional Cloning
Advanced Topic 2: Transgenic Animals
Benki & Harreman
Fridovich-Keil
MacGregor
11/24 Thanksgiving Holiday - No Class

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11/26 Thanksgiving Holiday - No Class

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11/29 Recombinant DNA II Fridovich-Keil
11/30 Preview: General Review
Advanced Topic 1: Combinatorial Methods
Advanced Topic 2: Gene Therapy
All TAs
Hodel
Pavlath
12/1 Cloning, knockouts, and Transgenics Fridovich-Keil
12/3 Thought Exercise in Cloning Fridovich-Keil
12/6 Nothing - No Class

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12/7 Examination 3

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