Group leader „Scientific Computing“ at HITS
Professor for High Performance Computing at the Karlsruhe Institute of Technology (KIT)

Research Interests
Algorithms, parallel computing, parallel architectures and evolutionary bioinformatics.

About me
I grew up in Athens and moved to Germany in 1995 to study computer science. During my studies in Munich I also spent quite time abroad in Lyon, Paris, Madrid and Athens. Prior to getting involved in Bioinformatics with the start of my PhD I mostly worked in the area of prototype software development for air traffic controllers.

Curriculum Vitae
Since 2012    Adjunct professor at the Department of Ecology and Evolutionary Biology at the University of Arizona at Tucson, US
Since 2012    Full professor for High Performance Computing at the Karlsruhe Institute of Technology (KIT), Germany
Since 2010    Leader “Scientific Computing” group at HITS, Germany
2008-2010    Head of an DFG Emmy-Noether junior research group at the Ludwig Maximilian University of Munich and the Technical University of Munich
2006-2008    PostDoc at the Swiss Federal Institute of Technology at Lausanne, Switzerland
2005-2006    PostDoc at the Institute for Computer Science, Foundation of Research and Technology Hellas, Heraklion, Greece
2001-2004    PhD at the Technical University of Munich, Germany
1995-2001    Study of computer science at the Technical University of Munich, Germany, and at the University of Lyon, France

Memberships
•    Member of the steering committee of the Munich Supercomputing System HLRB at LRZ
•    Member of the Scientific Advisory Board of Elixir Greece
•    Member of the scientific advisory board of the Computational Biology Institute in Montpellier, France

Teaching Awards
2016:     Received a certificate for teaching excellence from the dean of the faculty at the Karlsruhe Institute of Technology for their programming practical” Hands-on Bioinformatics Practical” tought in summer 2015 based on the practical evaluation by the students.
2015     Received a certificate for teaching excellence from the dean of the CS faculty at the Karlsruhe Institute of Technology for the course “Introduction to Bioinformatics for Computer Scientists” taught in winter 2014/15 based on the course evaluation by the students.

Recent Papers
Kassian Kobert, Alexandros Stamatakis, Tomas Flouri: “Efficient detection of repeating sites to accelerate phylogenetic likelihood calculations”. In bioRxiv, 035873, 2016. Also published in Systematic Biology, 2016.

Paschalia Kapli, Sarah Lutteropp, Jiajie Zhang, Kassian Kobert, Pavlos Pavlidis, Alexandros Stamatakis, Tomas Flouri: “Multi-rate Poisson Tree Processes for single-locus species delimitation under Maximum Likelihood and Markov Chain Monte Carlo”, BioRxiv, 063875, 2016. Also published in Bioinformatics, 2017.

Lucas Czech, Jaime Huerta-Cepas, Alexandros Stamatakis: “A Critical Review on the Use of Support Values in Tree Viewers and Bioinformatics Toolkits”. BioRxiv, 035360, 2016. Also published in Molecular Biology and Evolution, 2017.

Alexey M Kozlov, Jiajie Zhang, Pelin Yilmaz, Frank Oliver Glöckner, Alexandros Stamatakis: “Phylogeny-aware Identification and Correction of Taxonomically Mislabeled Sequences”. BioRxiv, 042200, 2016. Also published in Nucleic Acids Research, 2016.

Frederic Mahe, Colomban de Vargas, David Bass, Lucas Czech, Alexandros Stamatakis, Enrique Lara, Jordan Mayor, John Bunge, Sarah Sernaker, Tobias Siemensmeyer, Isabelle Trautmann, Sarah Romac, Cedric Berney, Alexey Kozlov, Edward Mitchell, Christophe Seppey, David Singer, Elianne Egge, Rainer Wirth, Gabriel Trueba, Micah Dunthorn: “Soil Protists in Three Neotropical Rainforests are Hyperdiverse and Dominated by Parasites”. BioRxiv, 050997, 2016. To appear in Nature Ecology & Evolution, 2017.