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Foundations of Computational and Systems Biology >> Content Detail



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Calendar

LEC #TOPICSKEY DATES
1Introduction/Sequence Comparison and Dynamic Programming
2Multiple Sequence Alignments I
3Multiple Sequence Alignments IIHomework 1 handed out
4Phylogenetic Analysis
5Literature Discussion
6Genome Sequencing and DNA Sequence AnalysisHomework 1 due
7DNA Sequence Comparison and Alignment
8DNA Motif Modeling and DiscoveryHomework 2 handed out
9Markov and Hidden Markov Models for DNA Sequences
10DNA Sequence Evolution
11RNA Secondary Structure PredictionHomework 2 due
12Literature Discussion on Predicting the Functions of DNA/RNA Sequences
13Midterm Exam – in class – Protein and DNA Sequence Analysis
14Protein Secondary Structure Prediction
15Introduction to Protein Structure and Classification
16Comparing Protein Structures

Molecular Modeling: Methods and Applications
17Using Computational Methods to Analyze, Predict, and Design Protein Sequences and Structures

Solving Structures using X-ray Crystallographpy and NMR
18Solving Structures using X-ray Crystallographpy and NMR (cont.)

Homology Modeling
Homework 3 handed out
19Methods for Protein Structure Prediction: Homology Modeling and Fold Recognition
20Threading and ab initio Structure Prediction

Computational Protein Design
Homework 3 due
21Introduction to Systems BiologyHomework 4 handed out
22Feedback Systems and Coupled Differential Equations
23DNA Microarrays and Clustering
24Literature Discussion on DNA Microarrays and ClusteringHomework 4 due
(a day after Lec #24)
25Computational Annotation of the Proteome
26Literature Discussion on Computational Annotation of the Proteome

 








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