Education
| 2003 | PhD, Computational Biology, CNRS/University of Montpellier, FR |
| 1999 | MS, Computer Science (Intelligent systems), Dauphine University, Paris, FR |
| 1998 | MS, Mechanical Engineering, INSA Toulouse, FR / Nottingham University, UK |
| 1995 | BS, Mechanical Engineering, Paul Sabatier University, Toulouse, FR |
Professional experience
| 2003-present | Lecturer (currently) / Postdoctoral research
associate, Lewis-Sigler
Institute, Princeton University. Advisor: Saeed Tavazoie. Computational and experimental analyses of transcriptional and post-transcriptional networks |
| 1999-2003 | Graduate student, Institute of Human
Genetics (CNRS) / LIRMM, Montpellier, FR. Advisors : Olivier Gascuel
(LIRMM) and Marie-Paule Lefranc (CNRS). Methods and algorithms for reconstructing gene duplication histories. Application to immunoglobulin and T cell receptor genes. |
| 1999 | Research assistant (7 months), INRIA Rocquencourt, FR.
Advisor : Yves Lechevallier. Algorithms for classification and visual representation of time series data |
| 1998 | Research assistant (5 months), Dept of Computer
Science,
Nottingham University. Advisor: Dave Elliman. Algorithms for reconstructing 3D models from scanned 2D mechanical drawings |
| 1997 | Research assistant (3 months), Laboratory of Automated
Systems, INSA Toulouse. Advisor: Bertrand Tondu. Modelization of a pneumatic "McKibben" robotic arm |
| 1995 | Assistant engineer (2 months), Matra Marconi Space,
Portsmouth, UK Thermal modelization of satellites using finite elements |
Publications
Elemento O*, Slonim N* and Tavazoie S. 2007. A universal framework for regulatory element discovery across all genomes and data-types (FIRE), Molecular Cell 28(2).
Full Text Web site. *Equal Contribution
Rated as 'Must Read' (Factor 6.0) by Faculty of 1000 Biology.
Highlighted in Nature Reviews Genetics
Elemento O. 2007. Developing a systems-level understanding of gene expression (Meeting Report, CSHL Systems Biology 2007), Genome Biology, 8:304
Full Text (subscription required), PDF (local copy)
De Renzis S, Elemento O, Tavazoie S and Wieschaus E. 2007. Unmasking the activation of the zygotic genome using chromosomal deletions in the Drosophila embryo, PLoS Biology, 5(5): e117
Full Text Suppl Material.
Highlighted in Nature Reviews Genetics
Elemento O, Tavazoie S. 2007. Fastcompare: a non-alignment approach for genome-scale discovery of DNA and mRNA regulatory elements using network-level conservation, Methods Mol Biol, 395:349-66
Full Text Suppl Material
Slonim N*, Elemento O*, Tavazoie S. 2006. Genotype-phenotype association reveals intrinsic modularity in genetic networks. Molecular Systems Biology 2:2006.0005
Full Text Suppl Material
*Equal Contribution
Chan CS*, Elemento O*, Tavazoie S. 2005. Revealing post-transcriptional regulatory interactions through network-level conservation. PLOS Computational Biology 1(7): e69
Full Text Suppl Material
*Equal Contribution
Elemento O, Tavazoie S. 2005. Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach. Genome Biology, 6:R18
Full Text Suppl Material
Gascuel O, Bertrand D, Elemento O. 2005. Recontructing the duplication history of tandemly repeated sequences. Book chapter (novel results, peer-reviewed) in: Mathematics of Evolution and Phylogeny, Oxford University Press.
Elemento O, Gascuel O. 2005. An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees, Journal of Discrete Algorithms 3:362–374 (extended version of CPM03, re-peer-reviewed)
Full Text
Elemento O, Lefranc M-P. 2003. IMGT/PhyloGene : an online tool for comparative analysis of IG and TR genes. Developmental Comparative Immunology. 27(9):763-79
Elemento O, Gascuel O. An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees. Proceedings of the Fourteenth Annual Symposium on Combinatorial Pattern Matching (CPM 2003), volume 2676 of Lecture Notes in Computer Science. Springer Verlag, 2003.
Elemento O. 2003. Phylogenetic analyses of tandemly repeated gene families and application to immunoglobulin and T cell receptor genes in IMGT. PhD Thesis, University of Montpellier/CNRS PDF (in French).
Elemento O, Gascuel O. Lefranc M.P. 2002. Reconstructing the duplication history of tandemly repeated genes. Molecular Biology and Evolution 19 :278-288. Full Text
Elemento O, Gascuel O. 2002. A fast and accurate distance-based algorithm for reconstructing tandem duplication histories. Bioinformatics. 2002, 18, S2:S92-S99. Full Text
Elemento O. 1999. Using Principal Component Analysis to initialize and validate Kohonen maps (in French). Proceedings of the Annual French Classification Society Conference (SFC'99), pp325-331.
Languages
French (mother tongue), Spanish, Hebrew (learning)
Other fun experiences
Web design: in the past, I have written software for and participated in the creation of several Internet companies: Misterclic (advertising game, defunct), Cityneo (city guide for wireless phones), Statuts Online (online automated company creation) and Reuniondeconso.com. The latter is a complex web site for organizing focus groups, and setting up and running online questionnaires and surveys. I developed the entire site and I am still developing new features for it from time to time.
Rowing: winner of the French 'Grandes Ecoles' university championship in 8+ with INSA Toulouse (1996), winner of British University (BUSA) championship in 4- (1998) with the University of Nottingham, second place in 8+. From 1996 to 2002, I co-held the world record for 100km team indoor rowing (using Concept II ergometers), with the University ofNottingham.
Acting: from 2000 to 2002, I was an actor in the "Theatre du Passant" group in Montpellier. I had the main role in "Genousie", a play by Rene de Obaldia.