The course is designed to introduce important concepts, methods, and tools of Bioinformatics. Topics include (but not limited to) sequence comparison and alignment, databases and data formats, phylogenetic analysis, gene prediction and regulation, prediction of deleterious amino acid substitutions, Protein Classification, Protein structure prediction such as alphafold, protein-protein Interactions, membrane protein structures. Emphasis will be put on the understanding and utilization of these concepts and algorithms. The objective is to help the students to understand the key concepts of bioinformatics and be able to use the bioinformatics tools to solve the problems on their own research.

Proposal writing, Presentations, and an exam

Recent key papers of bioinformatics and reading assignments.
BioinformaticsMountCSHL press 2005Structural BioinformaticsEditors: Phil Bourne and Helge WeissigWILEY publishing, 2003

1. Introduction and Overview
2. DNA sequence variation (polymorphism and deleterious amino acid substitutions)
3. Gene expression (Gene prediction and regulation)
4. Subcellular localization (Trafficking and target signaling)
5. Protein modification (phosphorylation prediction)
6. Protein structure (prediction and design)
7. Protein-protein interaction (recognition, sorting, interactome, docking, networking)
8. Protein-DNA (RNA) interaction (aptamer, nucleotide structure prediction)
9. Cell-Cell communication (signal transduction modules and membrane proteins)
10. Evolution (phylogenetic analysis, sequence conservation scoring, evolution coupling)
11. Bio-patterns and motifs (search, comparison)

(Lectures, Presentations, and Discussions about Bioinformatics)