By the end of the course participants should be able to:
• Explain the use of Bioinformatics
• Name the key Bioinformatics techniques and tools
• Locate important biological databases and retrieve data
• Use selected tools effectively to run specific Bioinformatics analyses
• Understand the strengths and limitations of the various techniques
- Overview of bioinformatics and application areas – ‘What is bioinformatics and why is it important?’
- Biological databases and resources (NCBI, EBI)
- Advanced literature searching – PubMed
- DNA analysis – e.g. sequence features, start site, restriction sites etc
- Genome sequences – sequencing technology and brief NGS overview
- Genome browsers and annotation
- Comparative Genomics
- Human variation
- Introduction to Linux, UNIX and the command line
- Manipulating files – useful commands and tips
- Permissions, groups, and process control
- Introduction to searching and sequence alignment
- Pairwise sequence alignment
- BLAST algorithm
- Applications of multiple sequence alignment
- Choosing the right sequences with the right software
- Introduction to protein structure and protein bioinformatics
- Comparative modelling
- Historical perspective, mechanisms of molecular evolution, and speciation.
- Traits, phylogenies, evolutionary models and divergence times.
- Tree building with distance matrix methods. Parsimony approaches.
- Tree building with maximum likelihood approaches. Bayesian viewpoint. Branch support measures.