Present address:
Genomics England, 1 Canada Square, London E14 5AB
Mar 2020- Principal Genomic Data Scientist, Genomics England, London, UK
2018- Feb 2020 Postdoc in Complex Trait Genetics with supervisor prof. Matthew Robinson, University of Lausanne, Switzerland.
2016-2017 Postdoc fellow in Human Population Genetics with director Dr. Lluis Quintana-Murci, Pasteur Institute, Paris, France.
2014-2015 Postdoc in Statistical and Computational Biology with supervisor prof. Daniel Wegmann, University of Fribourg, Switzerland.
2009-2013 PhD in Statistical Population Genomics (Supervisor: prof. Peter Keightley), Institute of Evolutionary Biology, University of Edinburgh, UK. Thesis Title: “The fitness effects of new mutations and adaptive evolution in house mice.”
2004-2009 Undergraduate studies in Biology. Dept. of Biological Applications and Technologies, University of Ioannina, Greece. Degree Grade: “Excellent” (8.62/10). Diploma thesis conducted in the Population Genetics and Evolution lab (Supervisors: prof. Emmanuel Ladoukakis and prof. Eleftherios Zouros), University of Crete, Greece.
Greek (native), English (bilingual proficiency), French (proficient).
Statistical genetics
Led several projects involving GWAS analysis of the largest genomic and phenotypic datasets in the world (UK and Estonian biobank data, Genomics England data) to elucidate risk factors underlying diseases such as type-II diabetes, cardiovascular disease and COVID-19.
Mixed models, Penalized & Bayesian regression.
Time-to-event and survival models.
Bayesian predictive distributions and polygenic risk scores.
Bayesian fine-mapping, colocalization.
Mendelian randomization.
Methods and analysis for relatedness and population structure from whole genome population data.
Analysis of linkage disequilibrium, genetic diversity, allele frequency spectra.
Coalescent analysis, inference for complex demographic history models.
Ancestry inference & admixture analysis.
Analysis of next generation sequencing data (illumina whole genome sequencing, exome sequences, genotype array data),
RNA-seq & proteomics data (O-link, Somalogic), eQTL and pQTL mapping, outlier detection.
Comfortable handling huge datasets (fastq, bam, VCF/gVCF, bgen), and in cloud based analysis.
Coded or contributed to code for several software packages in C/C++. Comfortable using standard libraries for mathematical computing and matrix algebra (e.g., GSL and Eigen).
Main data analysis language R and experience with Python especially in the machine learning domain, i.e, Python/scikit-learn, PyMC3, Edward/Tensorflow probability.
Parallel computing and efficient use of computer clusters (Sun Grid Engine, SLURM, LSF).
Conducted large scale analyses using cloud-based computing (AWS Services), and developed complex workflows in Nextflow. Container building.
Co-Developed Bayesian regression analysis method and software (C++). [BayesRRcmd]
Developed a Bayesian factor analysis model for analysis of population structure (C++). [BayesFactors]
Co-Developed new genotype caller for ancient genomes (C++). [ATLAS]
Co-Developed Approximate Bayesian Computation software for high dimensional models (C++). [ABC-PASS module within ABCtoolbox]
Developed maximum likelihood framework to infer the distribution of fitness effects of new mutations (C). [MultiDFE]
2018- Co-Supervision with Matthew Robinson of two PhD students. Department of computational Biology, University of Lausanne, Switzerland
2016-2017 Co-Supervision with Lluis Quintana-Murci of one PhD student. Human Evolutionary Genetics unit, Pasteur Institute
2014-2015 Co-Supervision with Daniel Wegmann of two PhD students and one internship student. Department of Biology, University of Fribourg, Switzerland
2010-2012 Co-Supervised with Peter Keightley two fourth-year honours (undergraduate) students, School of Biology, University of Edinburgh, UK
2015 Tutored MSc course on Machine Learning, School of Biology, University of Fribourg, Switzerland
2010; 2012 Tutored MSc course on Population and Quantitative Genetics, School of Biology, University of Edinburgh, UK
2009-2012 Demonstrated each year in a 3rd year course on Evolutionary and Ecological Genetics, School of Biology, University of Edinburgh, UK
2016-2017: Roux-Cantarini fellowship funded by Pasteur Institute, Paris, France.
2014: Award for best contribution in the meeting Systems genetics and evolution of non-human organisms (SGE 2014), Ascona, Switzerland.
2012: Junior Scientist Grant from the Genetics Society UK to attend the SMBE 2012 meeting in Dublin, Ireland.
2009-2012: PhD studentship funded jointly from the BBSRC and the School of Biological Sciences, University of Edinburgh, UK.
2009: Award for graduating first in class from the University of Ioannina, Greece.