Professional background and research experience

Transcription

1 François SERRA 29 years Tel: ext Academic data 2007 MSc Structural Genomics and Bioinformatics. ULP, Strasbourg (France) 2005 BSc Biology specialized in physiology and neurophysiology. ULP, Strasbourg (France) Professional background and research experience since 09/ / / / /2007 (200 hours) PhD student at Centro de Investigación Príncipe Felipe (CIPF). Comparative Genomics Unit. Valencia (Spain) Intern at Centro de Investigación Príncipe Felipe (CIPF). Functional Genomics Unit. Valencia (Spain). Intern at Ecole Supérieur de Biotechnologie de Strasbourg (ESBS). Structural study on a membrane protein. Strasbourg (France). Teaching Experience 06/ / / / / / / / / / / / / /2011 Course on Molecular Evolution, Phylogenetics, Phylogenomics & Adaptation. Centro de Investigación Príncipe Felipe, Valencia, Spain.CIPF, Valencia (Spain). Teaching assistant in a 5 days course. A Primer on Molecular Evolution and Phylogenetics. Department of Genetics, University of Cambridge (UK). Teaching assistant in a 3 days course. MEPA, Molecular Evolution, Phylogenetics and Adaptation. Gulbenkian Training Programme in Bioinformatics, Instituto Gulbenkian de Ciência. Oeiras (Portugal). Teaching assistant in a 5 days course. Exploring genomes with Ensembl. Master Biología molecular celular y genética. Universitat de Valencia. Spain. Teaching assistant in a 2 hours course. Introduction to Molecular Evolution and Adaptation. Training course Genómica y bioinformática: conceptos y usos de herramientas web for teachers/lecturers in the program: Centros de Formación, Innovación y Recursos Educativos (CEFIRE). Teaching in a 1 hour 45 course.

2 Additional Merits and Experience Specialized Courses and workshops 01-02/03/2011 Seminario de Formación sobre Como redactar un articulo cientifico. Centro de Investigacion Principe Felipe. Valencia (Spain) 31/05-04/06/2010 Montreal Spring School of Population Genomics and Genetic Epidemiology. Collège Jean-de-Brébeuf Montréal, Qc, (Canada). (with travel awards) /07/2009 Computational Phyloinformatics - a GTPB-NESCent Collaboration. Instituto Gulbenkian de Ciência. Oeiras (Portugal) 14-25/01/2008 European course Comparative Genomics. Ecole Normale Supérieure de Lyon. Lyon (France) Other professional experience since 09/2011 Journal Referee: BMC Bioinformatics Complementary skills Informatics Python, R, Perl, Unix shell script, Java (initiate), PHP (initiate). Experience with version control Git/SVN. Database interaction with mysql, PostgreSQL. Regular use of the CIPF s computing cluster (200 CPUs) (European Award to the first computing cluster dedicated to bioinformatics running entirely on open-source software ). Experience with queue systems (Oracle Grid Engine). Bioinformatics Experience in computational analysis of molecular evolution and adaptation (PAML), phylogenetics, phylogenomics, and functional genomics. Development of automated pipelines for genome or large scale analysis integrating different data sources, resulting data management, analysis, and presentation of results. Familiarity with publicly available genomic data sets, standard biological databases, and APIs (sequence, functional, orthology, structural, expression, interaction)

3 Publications Published Articles Evolution of the biosynthesis of di-myo-inositol phosphate, a marker of adaptation to hot marine environments. Gonçalves L, Borges N, Serra F, Fernandes P, Dopazo H and Santos H. Environmental Microbiology, accepted (2011 Sep) Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics, and hypotheses testing. Sánchez, R*, Serra F*, Tárraga J*, Medina I, Carbonell J, Pulido L, de María A, Capella- Gutíerrez S, Huerta-Cepas J, Gabaldón T, Dopazo J, Dopazo H Nucleic Acids Res., 39(Web Server issue):w470-4 (2011 Jul) * Authors contributed equally to this work. Role of tomato BRANCHED1-like genes in the control of shoot branching. Martín-Trillo M, González Grandío E, Serra F, Marcel F, Rodriguez-Buey M L, Schmitz G, Theres K, Bendahmane A, Dopazo H, Cubas P The Plant Journal, 67(4): (2011 Jun) Natural Selection on Functional Modules, a Genome-Wide Analysis. Serra F, Arbiza L, Dopazo J, Dopazo H PLoS Comput Biol, 7(3):e (2011 Mar) Recent human evolution has shaped geographical differences in susceptibility to disease. Marigorta UM, Lao O, Casals F, Calafell F, Morcillo-Suárez C, Faria R, Bosch E, Serra F, Bertranpetit J, Dopazo H, Navarro A BMC Genomics, 12(1):55 (2011 Jan) Submitted Articles (2011) Sexual Selection and the Evolution of Protamines in Primates and Rodents. Serra F, Roldán E, Dopazo H, Gomendio M. Evolutionary genomics of genes involved in olfactory behavior in the Drosophila melanogaster species group: timing of expression and position in the signal transduction pathway. Lavagnino N, Serra F, Arbiza, L, Dopazo H, Hasson E. Sexual selection halts the relaxation of Protamine 2 among Rodents. Lüke L, Vicens A, Serra F, Luque-Larena J J, Dopazo H, Roldán E, and Gomendio M. On the Universal Random-like Structure of Genomes. Becher V, Barenbaum P, Deymonnaz A, Halsband M, Ariel Heiber P, Sánchez R, Herrero J, Serra F, Hernán Dopazo.

4 Book chapters Genómica Comparativa y Selección Natural. Aplicaciones en el Genoma Humano. Serra F, Arbiza L y Dopazo H. Capítulo 1.6. En: "Evolución y Adaptacón. 150 años después del Origen de las Especies". Hernán Dopazo y Arcadi Navarro (Eds). Pp Obrapropia. Valencia. España. (2009) Oral communications and Posters Presentations Posters The influence of sexual selection upon sperm design in mammals: integrating phenotypic and genomic approaches. Gomendio M, Tourmente M, Lueke L, Gomez-Montoto L, Vicens A, Serra F, Dopazo H, & Roldan E. NEW DIRECTIONS IN SEXUAL SELECTION RESEARCH: Unifying behavioural & genomic approaches. University of Bath (UK). (01-04/09/2010) Duplication and divergence of branched1-like genes and the evolution of the control of shoot branching in tomato. Martín Trillo M, González Grandío E, Serra F, Rodriguez Buey ML, Dopazo H, Cubas P. XVII Congress of the Federation of European Societies of Plant Biology (FESPB). Valencia (Spain). (05/07/2010) Genome Scale Adaptation by Selection on Functional Modules. Serra F, DopazoH. Segundo Congreso de la Sociedad Española de Biología Evolutiva. Valencia, Spain. (02/12/2009) Refocusing genome scale analysis of adaptation at functional level. Serra F, Dopazo H. GDRE - RA Comparative genomics Fourth meeting. Lyon, France. (16/10/2009) Presentation of Phylemon, the suite of web tools for molecular evolution, phylogenetics and phylogenomics. Serra F, Arbiza L, Dopazo H. INB ROADSHOW. Sevilla, Spain. (14-15/01/2009) Serra F, Huerta-Cepas J, Gabaldón T, Dopazo H. GDRE-RA Comparative genomics Fifth meeting. Barcelona, Spain.(16-17/11/2010) Serra F, Huerta-Cepas J, Gabaldón T, Dopazo H. Xth Spanish Symposium on Bioinformatics (JBI2010). Málaga, Spain. (17-19/10/2010) Serra F, Huerta-Cepas J, Gabaldón T, Dopazo H. Frontiers in Biodiversity: a Phylogenetic Perspective. Barcelona, Spain. ( ) Molecular evolution of olfactory behavior genetic basis in Drosophila. Lavagnino N, Serra F, Arbiza L, Dopazo H, and Hasson E American Genetic Association symposium. Raleigh (North Carolina) USA. (2008)

5 Comparative Analysis of Genes under Alternative Selective Strength during Primates and Murid Evolution. Serra F, Arbiza L, Dopazo H. 8th Spanish Symposium on Bioinformatics and Computational Biology. Valencia, Spain. (01/02/2008) Phylemon 2.0: New resources in a suite of web tools for molecular evolution, phylogenetics and phylogenomics. Tarraga J, Medina I, Huertas-Cepas J, Serra F, Arbiza L, Gabaldón T, Dopazo J, Dopazo H. 8th Spanish Symposium on Bioinformatics and Computational Biology. Valencia, Spain. (01/02/2008)