Molecular Phylogenetics - Ljubljana, Slovenia
The course will provide training for bench-based biologists to use molecular data to construct and interpret phylogenies, and test their hypotheses. Delegates will gain hands-on practice of using a variety of programs freely available online and commonly used in molecular studies, interspersed with some lectures.
Audience
This course is aimed at bench-based biologists with limited or no knowledge of the field of molecular evolution and with some experience of examining DNA/protein sequence data.
Syllabus, Tools and Resources
During this course you will learn about…
- Alignment: muscle,
- Features of phylogenies and Branch support
- Data interpretation:
- Methods of phylogenetic reconstruction: MrBayes, PhyML
- Hypothesis testing: ModelTest, PAML
What will I learn?
After this course you should be able to…
- Appreciate some advantages and limitations of alternative molecular analyses
- Use some freely available software to conduct molecular analyses
- Interpret analyses in their biological context
- Appreciate the importance of statistical rigour in molecular analyses
| Time | Topic | Trainer |
|---|---|---|
| Day 1 - 23 September 2013 | ||
| 09:00 | Introduction to course and EBI | Laura Emery |
| 09:30 | Interpreting Alignments and practical exercises | Aidan Budd and Sarah Parks |
| 11:00 | Coffee break | |
| 11:30 | Interpreting Phylogenies I | Aidan Budd and Sarah Parks |
| 12:30 | Lunch | |
| 13:30 | Interpreting Phylogenies II | Aidan Budd and Sarah Parks |
| 15:00 | Coffee break | |
| 15:30 | Interpreting Phylogenies practical exercises | Aidan Budd and Sarah Parks |
| 17:30 | Close | |
| Day 2 - 24 September 2013 | ||
| 09:00 | Phylogenetic Methods I (Maximum Likelihood) | Nick Goldman |
| 10:30 | Coffee break | |
| 11:00 | Constructing Phylogenies practical session | Nick Goldman |
| 12:30 | Lunch | |
| 13:30 | Statistical Thinking for Hypothesis Testing | Nick Goldman |
| 15:00 | Coffee break | |
| 15:30 | Hypothesis Testing - practical | Nick Goldman, Kevin Gori |
| 17:30 | Close | |
| Day 3 - 25 September 2013 | ||
| 09:00 | Phylogenetic Methods II (Branch Support, Bayesian, MCMC Diagnosis) | Clemens Lakner |
| 11:00 | Coffee break | |
| 11:30 | Constructing Phylogenies practical session II Short paper |
Clemens Lakner |
| 12:30 | Lunch | |
| 13:30 | Hypothesis Testing to Detect Positive Selection | Asif Tamuri |
| 15:00 | Coffee break | |
| 15:30 | Detecting Positive Selection practical | Asif Tamuri |
| 17:00 | Q&A session and course feedback | Laura Emery |
Agricultural Institute of Slovenia is co-organiser of this event.
Tags:
bioinformatics