The research group of Jan Fostier has a strong background in both High Performance Computing (HPC) and Big Data Analytics with applications in life sciences and bioinformatics. By exploiting the computing power of supercomputers and/or accelerator technology (GPUs), it is often possible to reduce runtime by two or three orders of magnitude. Even though primarily focused on the computing aspects, our research group is involved in many interdisciplinary scientific collaborations, often cross-faculty/university (bioscience engineers, biologist, medical doctors, etc.) and/or with industry (Janssen Pharmaceutica, Progeno, Amplidata, Enza Zaden, Agilent, Bluebee, etc.).
Keywords: Bioinformatics, sequencing data, high performance computing (HPC), big data processing, stochastic modelling
Sebastian Proost, Jan Fostier, Dieter De Witte, Bart Dhoedt, Piet Demeester, Yves Van de Peer, Klaas Vandepoele, “i-ADHoRe 3.0—fast and sensitive detection of genomic homology in extremely large data sets”, Nucleic acids research, vol. 40, no. 2, 2011.
Dries Decap, Joke Reumers, Charlotte Herzeel, Pascal Costanza, Jan Fostier, “Halvade: scalable sequence analysis with MapReduce”, vol. 31, no. 15, 2015.
Dieter De Witte, Jan Van de Velde, Dries Decap, Michiel Van Bel, Pieter Audenaert, Piet Demeester, Bart Dhoedt, Klaas Vandepoele, Jan Fostier, “BLSSpeller: exhaustive comparative discovery of conserved cis-regulatory elements”, Bioinformatics, vol. 31, no. 23, 2015.
Arne De Coninck, Bernard De Baets, Drosos Kourounis, Fabio Verbosio, Olaf Schenk, Steven Maenhout, Jan Fostier , “Needles: towards large-scale genomic prediction with marker-by-environment interaction”, Genetics, vol. 115, 2016.
Sergio Pulido-Tamayo, Aminael Sánchez-Rodríguez, Toon Swings, Bram Van den Bergh, Akanksha Dubey, Hans Steenackers, Jan Michiels, Jan Fostier, Kathleen Marchal, “Frequency-based haplotype reconstruction from deep sequencing data of bacterial populations”, vol. 43, no. 16, 2015.