The Exelixis Lab


Enabling Research in Evolutionary Biology

Computational molecular evolution workshop series

Here is a link to a series of summer schools on computational molecular evolution in which our lab is actively involved: CoME

Photo below: Group picture of the 2010 EMBO summer school at HCMR-IMBG in Crete.

Typically PostDocs and PhD students from the Exelixis lab also contribute actively to the school as teaching assistants. Pavlos participated in 2011 and 2012. Simon helped as TA in 2012, Fernando and Tomas helped in 2013. Andre, Pavlos, and Paschalia contributed in 2014.

  • The 3rd course in 2011 course took place in Hinxton and was funded by the Wellcome Trust.
  • The 4th course took place in Crete again in 2012 and was funded by EMBO and co-sponsored by the Heidelberg Institute for Theoretical Studies.
  • The 5th course took us back to Hinxton again in 2013 from April 29 to May 10 thanks to the Wellcome trust.
  • The 6th course took place in Crete again in 2014 from May 5 - May thanks to EMBO, HITS, and the Astir beach hotel.
  • The 7th course will take us back to Hinxton again in 2015 from April 13 to April 24 thanks to the Wellcome trust.

Regular courses

  • Summer 2015: Seminar on "Hot Topics in Bioinformatics" at KIT.
  • Summer 2015: "Hands-on Bioinformatics Practical" at KIT.
  • Winter 2014/15: Lectures on "Introduction to Bioinformatics for Computer Scientists" at KIT.
  • Winter 2014/15: Seminar on "Hot Topics in Bioinformatics" at KIT.
  • Winter 2014/15: "Hands-on Bioinformatics Practical" at KIT.
  • Summer 2014: Lectures on "Introduction to Bioinformatics for Computer Scientists" at KIT.
  • Summer 2013: Seminar on "Hot Topics in Bioinformatics" at KIT.
  • Winter 2012/13: Lectures on "Introduction to Bioinformatics for Computer Scientists" at KIT.
  • Summer 2010: Lectures on "High Performance Computing for Bioinformatics Students" at TUM.
  • Summer 2010: Seminar on "Biological and Computational Aspects of Phylogenetic Inference and Implications for the Evolution of Life on Earth" at TUM/LMU.
  • Winter 2009/10: Lectures on "Computational Phylogenetics" at LMU.
  • Summer 2009: Semniar on "Biological and Computational Aspects of Phylogenetic Inference and Implications for the Evolution of Life on Earth" at TUM/LMU.
  • Summer 2009: Lectures on "Pearls of Computer Science IV" at TUM.
  • Winter 2008/09: Lectures on "High Performance Computing" at LMU.

Summer school lectures & tutorials

  1. Alexis: "Large-scale phylogenetic inference", 17th international bioinformatics workshop, Belgrade, Serbia, August 2012.
  2. Fernando: "Lectures and practical excercises: Parallel Computing & Phylogenetic Inference" at Bioinformatics and systems biology school for young scientists,Institute of Cytology and Genetics, Novosibirsk, Russia, June 2012.
  3. Alexis: "RAxML hands-on tutorial", National Museum of Natural History, Stockholm, Sweden, May 2012.
  4. Alexis: "Parallel Computing in Phylogenetics", CoME summer school, Heraklion, Greece, April/May2012.
  5. Alexis: "Parallel Computing in Phylogenetics: Lectures and Practicals", training course on Basic Molecular Evolution and Phylogenetics, Sofia, Bulgaria, March 2012.
  6. Alexis: "HPC in Bioinformatics Lectures and Practicals", Cyprus Advanced HPC Workshop, Nicosia, Cyprus, February 2012.
  7. Pavlos: "Detecting positive selection: i) Machine-learning and Bayesian approaches ii) Selection in multiple-locus models", Genomics In Biodiversity workshop, Institute for Marine Biology and Genetics, Heraklion, Greece, September 2011.
  8. Alexis: "EES Phylogenetics summer-school", lectures, Frauenchiemsee, Germany, August 2011.
  9. Alexis: " Computational Molecular Evolution", CoME summer school, Wellcome Trust, Hinxton, UK, April 2011.
  10. Alexis: "Fast, Free Phylogenies: HPC for Phylogenetics Tutorial”, tutorial lectures, NIMBioS, Knoxville, Tennessee, October 2010.
  11. Alexis: "Phylogenetic Inference", summer school, Frauenchiemsee, Germany, September 2010.
  12. Alexis: "Phylogenetic Inference under Maximum Likelihood",  summer school, Milano, Italy, August 2010.
  13. Alexis: "Modern Computational Science", summer school, University of Oldenburg, Germany, August 2010.
  14. Alexis: "Computational Molecular Evolution", summer school, Institute of Marine Biology and Genetics - Hellenic Center for Marine Research, Heraklion, Greece, May 2010.
  15. Alexis: "Phylogenetic Inference & Identification",  TRACEability of Arbuscular Mycorrhizal fungi as plant-beneficial microorganisms in agro-environments Summer School, Munich, Germany, April 2009.
  16. Alexis: “Phylogenetic Inference”, Bernhard-Rensch Summer School 2008, Carolinensiel, Germany, July 2008.
  17. Alexis: “Computation of large phylogenetic trees: algorithmic and technical solutions”, The 2008 BGRS International Summer School for young scientists: “Evolution, Systems Biology and High Performance Computing Bioinformatics”, Novosibirsk, Russia, July 2008.
  18. Alexis: “Computation of large phylogenetic trees: algorithmic and technical solutions”, The 2006 BGRS International Summer School for young scientists: “Evolution, Systems Biology and High Performance Computing Bioinformatics”, Novosibirsk, Russia, July 2006.
  19. Alexis: “Computational Grand Challenges in Assembling the Tree of Life: Problems & Solutions” half-day tutorial with David Bader and Usman Roshan at 18th IEEE/ACM Supercomputing Conference (SC2005), Seattle, Washington, November 2005.
  20. Alexis: “High Performance Computing in Bioinformatics”, half-day tutorial with Thomas Ludwig at the German Conference on Bioinformatics (GCB’04) in Bielefeld, Germany, October 2004.
  21. Alexis: “High Performance Computing in Bioinformatics”, half-day tutorial with Thomas Ludwig at the 4th International Conference on Bioinformatics and Genome Regulation and Structure (BGRS2004) in Novosibirsk, Russia, July 2004.