8.1 Introduction of Computational and Systems Biology

8.2 Lecture 2: Local Alignment (BLAST) and Statistics

8.3 Global Alignment of Protein Sequences (NW, SW, PAM, BLOSUM)

8.4 Comparative Genomic Analysis of Gene Regulation

8.5 Library Complexity and Short Read Alignment (Mapping)

8.6 Genome Assembly

8.7 ChIP-seq Analysis; DNA-protein Interactions

8.8 RNA-sequence Analysis: Expression, Isoforms

8.9 Modeling and Discovery of Sequence Motifs

8.10 Markov and Hidden Markov Models of Genomic and Protein Features

8.11 RNA Secondary Structure – Biological Functions and Prediction

8.12 Introduction to Protein Structure; Structure Comparison and Classification

8.13 Predicting Protein Structure

8.14 Predicting Protein Interaction

8.15 Gene Regulatory Networks

8.16 Protein Interaction Networks

8.17 Logic Modeling of Cell Signaling Networks

8.18 Analysis of Chromatin Structure

8.19 Discovering Quantitative Trait Loci (QTLs)

8.20 Human Genetics, SNPs, and Genome Wide Associate Studies

8.21 Synthetic Biology: From Parts to Modules to Therapeutic Systems

8.22 Causality, Natural Computing, and Engineering Genomes