The Exelixis Lab


Enabling Research in Evolutionary Biology

group leader

  • Tough day doing field work in Crete Tough day doing field work in Crete

  • Fighting the heat in Valencia

  • Very thirsty in latin america

Prof. Dr. Alexandros Stamatakis

E-mail: Alexandros.Stamatakis[at]h-its.org
GitHub: https://github.com/stamatak
Google scholar
Personal web page
Twitter

postdocs

  • Dr. Tomas Flouri

    Tomas joined us as a PostDoc in May 2012.
    Phone: +49 (0)6221 - 533 - 292
    E-mail:
    GitHub: https://github.com/xflouris
    Google scholar
    Personal web page
  • Dr. Diego Darriba

    Diego joined us as PostDoc in January 2014.
    Phone:
    E-mail:
    GitHub: https://github.com/ddarriba
    Google scholar
    Personal web page
  • Dr. Paschalia Kapli

    Paschalia, a former visiting PhD student, joined us as a PostDoc in January 2015.
    Phone:
    E-mail:
    GitHub:
    Google scholar
    Personal web page

phd students

  • Lucas Czech

    Dipl.-Inform. Computer Science, Karlsruhe Institute of Technology, started working on his PhD project in July 2014.
    Phone:
    E-mail:
    GitHub:
    Google scholar
    Personal web page
  • Alexey Kozlov

    MSc Computer Science, Karlsruhe Institute of Technology, started working on his PhD project in June 2013.
    Phone: +49 (0)6221 - 533 - 291
    E-mail:
    GitHub: https://github.com/amkozlov
    Google scholar
    Personal web page

bachelor and master students

  • Sarah Lutteropp

    BsC Computer Science, Karlsruhe Institute of Technology, started working with us as a student programmer in February 2015.
  • Pierre Barbera

    BsC Computer Science, Karlsruhe Institute of Technology, work with us on his Master's thesis since January 2016.
  • Nico Schweiger

    BsC Mathematics, Karlsruhe Institute of Technology, will work with us on his Master's thesis since January 2016, co-supervised with Tilman Gneiting.

lab alumni

postdocs

  • Stephen A. Smith (PhD, Evolutionary Biology, Yale) worked as a shared PostDoc in the Exelixis Lab and the Dunn Lab  at Brown University from mid-2010 to the end of 2011. Stpehen is now an assistant professor at the university of michigan.
  • Pavlos Pavlidis (Dr. rer. nat, LMU Munich) worked as a PostDoc with us from February 2011 to December 2012. He went back to Crete to commence a second PostDoc at IMBB since he had missed our beautiful island too much for too many years. More recently, he was appointed as Assistant Researcher (equivalent to assistant professor) in Bioinformatics at the Institute of Computer Science of the Foundation for research and technology, Hellas in Heraklion, Crete.
  • Solon Pissis (PhD, Computer Science, King's college London) workaed as a shared PostDoc in the Soltis lab and the Exelixis lab from November 2011 until June 2013. He will start his new job as lecturer at King's college Londin in September 2013.

phd students

  • Michael Ott (Dr. rer. nat., TU Munich) has been co-supervised by Prof. Bode (chair of Computer Architectures and Computer Organization) and me and has succesfully defended his PhD thesis in October 2010. He did a PostDoc in Australia until fall 2011 with Lars Jermiin at CSIRO. He returned to Munich and is now working as staff scientist at the Munich supercomputing center.
  • Nikos Alachiotis (Dr. rer. nat, TU Munich) worked as PhD student in our group from February 2009 to December 2012. He received his PhD in November 2012 and initially went back to Greece to do his military service before continuing his scientific career as a PostDoc at Carnegie Mellon University in the US in 2014.
  • Simon Berger (Dr. ing., Karlsruhe Institute of Technology) worked as PhD student in our group from January 2009 to January 2013. He received his PhD in January 2013 and decided to start working in the automotive software industry in Munich as of February 2013.
  • Fernando Izquierdo-Carrasco (Dr. ing., Karlsruhe Institute of Technology) worked as PhD student in our group from January 2010 to December 2013. He received his PhD in June 2014 and has been working as Bioinformatician at Oxford Nanopore in the UK since February 2014.
  • Jiajie Zhang (Dr. rer. nat., University of Lübeck) worked as PhD student in our group from June 2012 to March 2015. He received his PhD in March 2015 and has joined his lab-mate Fernando at Oxford Nanopore in the UK as of mid-March 2015.
  • Andre J. Aberer (Dr. ing., Karlsruhe Institute of Technology) worked as master's and then PhD student in our group from 2009 to March 2015. He submitted his thesis in summer 2015 and defended it in winter 2015. He now works for Bloomberg in Frankfurt.
  • Kassian Kobert, worked as a PhD student in our group from October 2011 to November 2015. He has already submitted his PhD thesis and will defend it in May 2016 at KIT. He has already started working as a PostDoc with Bastien Bousseau in Lyon, France as of February 1st, 2016.

master and bachelor students

  • Constantin Scholl (BsC in Information Engineering and Management, Karlsruhe Institute of Technology) worked with us as on his Bachelor thesis from May to November 2015. His topic was to implement and assess data distribution heuristics for parallel likelihood calculations on partitioned alignments when the site repeats technique is being used for accelerating phylogenetic likelihood calculations.
  • David Dao (BSc Computer Science, Karlsruhe Institute of Technology) did his Bachelor's thesis with us, working on automated methods for assessing the plausibility of large phylogenies. Thereafter, he also worked as a student programmer with us for almost two years. He will move to the US soon, to work on his Master's thesis there.
  • Patrick Flick (MSc Computer Science, Karlsruhe Institute of Technology) did his Master's thesis with us, working on protein interaction networks. He moved to the US in the meantime and will do a PhD at Georgia Tech.
  • Sebas Mendez (MSc Computer Science, Karlsruhe Institute of Technology) worked with us from April 2013 - December 2013 as student programmer (HiWi) on GPUs.
  • Jörg Hauser (MSc Computer Science, Master's thesis, Heidelberg University) is now working at a software company in Munich.
  • Denis Krompaß (MSc Bioinformatics, TUM/LMU, project work) is now doing a PhD in Munich.
  • Pinar Özbay (MSc Computational Science and Engineering, TUM, project work)
  • Harald Kraft (with Prof. Bungartz and Prof. Kranzlmueller; Diploma student in Computer Science, LMU Munich, project work)
  • Jan Stutzki (with Prof. Bungartz and Prof. Kranzlmueller; Diploma student in Computer Science, LMU Munich, project work)
  • Roland Wittman (with Prof. Bungartz; BSc Computer Science, TUM, project work)
  • Valeriy Khakhutskyy (with Prof. Bungartz; Bachelor Thesis, Technical University of Munich)
  • Szymon Seliga (Student Programmer, Technical University of Munich)
  • Zsolt Komornik (Student Programmer, Technical University of Munich)
  • Nikos Alachiotis (with Prof. Dollas, Diploma Thesis, Technical University of Chania)
  • Masoud Alipur (Master Thesis, Ecole Polytechnique Federale de Lausanne)
  • Margarida Faria (Project Work, Ecole Polytechnique Federale de Lausanne)
  • Maria Charalambous (with Prof. Trancoso, Master Thesis, University of Cyprus)
  • Michael Ott (Diploma Thesis, Technical University of Munich)
  • Georg Hoesch (Diploma Thesis, Technical University of Munich)
  • Bert van Heukelom (Diploma Thesis, Technical University of Munich)
  • Christoph Lauter (Project Work, Technical University of Munich)
  • Michael Ott (Project Work, Technical University of Munich)
  • Cornel Babel (Project Work, Technical University of Munich)

lab visitors

visiting faculty

  • Prof. Mark Holder from the University of Kansas spent his sabbatical with us at HITS from August 2014 to July 2015.

visiting postdocs

  • Dr. Emily Jane McTavish from the University of Kansas joined Mark Holder on his sabbatical via a Humboldt-Fellowship. She worked with us from december 2014 to August 2015.

visiting phd students

  • Rebecca Harris is a PhD student with Adam Leache at the University of Washington in Seattle. She spent three months working with us from October to December 2015.
  • Paschalia Kapli, a PhD student from the Biology department at the University of Crete spent 6 months with us from September 2012 to March 2013 and then another 6 months from September 2013 to March 2014.
  • Diego Darriba, a PhD student from the University of Vigo at david Posada's lab spent three months working with us in fall 2012.
  • Dilrini De Silva, a PhD student from Queens College London spent three months working with us in spring 2012.
  • William Pearse (MSc Biology), a PhD student from Imperial College London spent three months with us in fall 2011.