Curriculum Vitae

Sophos kagathos

Qualifications

2001–2004

PhD in Computer Science, with highest honours

Supervised by Prof. P. Collard - University of Nice, France

Homology in Genetic Programming: Application to inverse problem solving

1999

Master Degree of Science, with high honours

Supervised by Prof. P. Collard - University of Marne-la-vallee, France

Computer Science, Bio-Informatics

1998

Bachelor Degree of Science, with highest honours

Supervised by Prof. H. Fouchal - University of Reims, France

Computer Science, Artificial Intelligence

Research Experience

Since Jan 2009

Senior Bio-informatics scientist, Permanent position

BioMathematics and BioInformatics Rothamsted Research, UK

Research Area :

◦ Infering networks of water stress response in Durum wheat
◦ Prediction and analysis of Protein Protein Interaction networks
◦ Computational study of Transcription Associated Proteins in Fusarium

Oct 2007-Nov 2008

Postdoctoral Fellow

Department of Computer Science University of Auckland, New Zealand

Research Area :

◦ Bayesian evolutionary reconstruction using Markov Chain Monte Carlo
◦ Time divergence estimation with relaxed phylogenetics
◦ Efficient mixing in time constrained tree space

Jan-Sep 2007

Associate Research Fellow

Lab KEDRI Auckland University of Technology, New Zealand

Research Area :

◦ Inference of Gene Regulatory Networks for Long-Term Potentiation
◦ Estimation of Distribution Algorithms for large-scale combinatorial optimization

2005–2006

Postdoctoral Fellow, Funded by the french space agency

Lab CNRS-LOV University of Paris VI, France

Research Area :

◦ Solving the Ocean Colour inverse problem with Machine Learning methods (Genetic
Programming, Artificial Neural Networks, Support Vector Machines)
◦ Genetic evolution of Kernels for Support Vector Machines applied to regression
problems
◦ Approximation of conditional probabilities by teams of genetic predictors for Inverse Problem Solving

2001–2004

PhD Student, Funded by the french ministry of research and ACRI-ST

Lab CNRS-I3S University of Nice, France

Research Area :

◦ Study of homologous recombination in Genetic Programming
◦ Inverse problem (aerosols optical properties) solving with teams of genetic predictors
◦ Study of neutrality in Genetic Programming search space

2000–2003

Software and Research engineer, Full time job

Company ACRI-ST Sophia-Antipolis, France

Research Area :

◦ Forecasting Olea pollen daily dispersion with a Recurrent Neural Network approach for the European project ASTHMA (Advanced System of Teledetection for Health-care Management of Asthma)
◦ Statistical analysis of environmental data for remote sensing applications
◦ Statistical modeling of the optical degradation of a spatial spectro-imager (satellite MERIS-ENVISAT of the European Space Agency)

Projects :

◦ GeorIS : A Geographical Information System for the European Union (C, C++,
Tcl/Tk, GeoTIFF, . . .)
◦ SAMAA : Software for Air pollution Modeling and Analysis Activities (Visual,
Fortran , C)
◦ XChange : An automatic file transfer system via Ftp (Visual C++, C, python)

1999

Master degree internship, Funded by the french ministry of research

Lab CNRS-I3S Sophia-Antipolis, France

Research Area :

◦ Codage and neutrality in Genetic Algorithms search space
◦ Proteins secondary structure prediction with a Soft Computing approach
◦ Optimization of NK-landscapes and 0-1 Knapsack problem