Courses:

Foundations of Computational and Systems Biology >> Content Detail



Lecture Notes



Lecture Notes

CB = Professor Chris Burge
AK = Professor Amy Keating
MY = Professor Michael Yaffe


LEC #TOPICSLECTURERS
1Introduction/Sequence Comparison and Dynamic Programming (PDF - 2.6 MB)MY
2Multiple Sequence Alignments I (PDF)MY
3Multiple Sequence Alignments II (PDF)MY
4Phylogenetic Analysis (PDF)MY
5Literature Discussion (PDF)MY
6Genome Sequencing and DNA Sequence Analysis (PDF)CB
7DNA Sequence Comparison and Alignment (PDF)CB
8DNA Motif Modeling and Discovery (PDF)CB
9Markov and Hidden Markov Models for DNA Sequences (PDF)CB
10DNA Sequence Evolution (PDF)CB
11RNA Secondary Structure Prediction (PDF)CB
12Literature Discussion on Predicting the Functions of DNA/RNA SequencesCB
13Midterm Exam – in class – Protein and DNA Sequence Analysis
14Protein Secondary Structure Prediction (PDF)MY
15Introduction to Protein Structure and Classification (PDF - 1.8 MB)AK
16Comparing Protein Structures

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

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

Homology Modeling (PDF)
AK
19Methods for Protein Structure Prediction: Homology Modeling and Fold Recognition (PDF)AK
20Threading and ab initio Structure Prediction

Computational Protein Design (PDF)
AK
21Introduction to Systems BiologyMY
22Feedback Systems and Coupled Differential EquationsMY
23DNA Microarrays and Clustering (PDF - 1.8 MB)CB
24Literature Discussion on DNA Microarrays and ClusteringCB
25Computational Annotation of the Proteome (PDF)AK
26Literature Discussion on Computational Annotation of the ProteomeAK

 








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