Professional experiences / Skills

I use computers for professional reasons since many years. It all started in 1989 during my postgraduate pre-PhD diploma at the Meudon Observatory,  during hand-on lessons about computer simulations. At this time we were using Fortran on Vax/VMS computers. The practical part of this pre-PhD course was held at the Nice Observatory, were I performed  numerical simulations of observation of solar magnetic fluxtubes in polarized light. This work lead to my first scientific publication  « Radiative transfer across a magnetic flux tube », Audic, S., Solar Physics, vol. 135, p. 275-297.

Then I did a PhD in Astrophysics, still at the Nice Observatory, under the guidance of Hélène Frisch. During my theses, I worked on numerical simulations of the propagation of photons in inhomogeneous media, using CM Fortran on the Connexion Machine CM-2 installed at INRIA,  Sophia-Antipolis, Near Nice.

After my thesis, I went to CRS4 (Centro di Ricerca, Sviluppo e Studi Superiori in Sardegna), in Cagliari, where I worked on image processing problems, namely the recognition of spots on images of DNA hybridization filters. During this stay in Sardinia, I moved from the filed of Astrophysics to that of Bioinformatics, a relatively new scientific domain at that time.

Then, in 1995, I went back to France, to work in the laboratory « Information Génétique et Structurale » in Marseilles, leaded by Dr Jean-Mcihel Claverie. I worked there on a number of topics, among which study of differential expression of genes, or genome assembly and annotation, mainly of bacteria, but also of the famous Mimivirus, the first giant virus to be discovered. In Marseilles, I earned a permanent position from CNRS, as a Research Engineer in scientific computing.

In 2010 I left Marseilles to join the Station Biologique de Roscoff, and worked in the “Adaptation et Diversité en Milieu Marin” laboratory leaded by François Lallier, in the team “Evolution of plancton and pelagic ecosystems” leaded by Colomban de Vargas. My work there included management of the metabarcoding data generated during the Tara Oceans expedition (see for instance “Eukaryotic plankton diversity in the sunlit ocean”, de Vargas C, Audic S, Henry N et al., Science, vol. 348, Issue 6237, 1261605).

In june 2017, I left CNRS to create the company Roskoding. With many years of professional experience in computer programming, data analyses, web services, databases, data mining, etc, it is time for me to run my own business, for more liberty but also more responsibilities, and offer my knowledge and technical skills to a wider public.

Stéphane Audic