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
| 2009- |
Assistant Professor, Weill Cornell Medical College
|
| 2008- |
Institute Fellow and group leader, Weill Medical College of Cornell University
|
| 2003-2008 |
Lecturer / 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
Goodarzi H*,
Elemento O*, Tavazoie S.
Revealing global regulatory perturbations across human cancers. 2009.
Molecular Cell, in press.
*Equal Contribution
Da Piedade I, Eric Tang MH,
Elemento O.
DISPARE: A DIScriminative PAttern REfinement algorithm for Position Weight Matrices. 2009.
BMC Bioinformatics, in press
Ci W, Polo JM, Cerchietti L, Shaknovich R, Wang L, Yang N, Ye K, Farinha P, Horsman DE, Gascoyne RD,
Elemento O*, Melnick A*. 2009.
The BCL6 transcriptional program features repression of multiple oncogenes in primary B-cells and is deregulated in DLBCL, 2009.
Blood, 113(22):5536-5548
Full Text * Joint Corresponding Authors
Lu X, Li J,
Elemento O, Tavazoie S, Wieschaus E. 2009.
Revealing nucleocytoplasmic ratio regulated zygotic transcription during Mid Blastula Transition using a genomic approach. 2009.
Development 136(12):2101-10
Full Text
Highlighted in Nature Reviews Genetics
Legesse-Miller A,
Elemento O, Pfau S, Forman J, Tavazoie S, Coller H.
let-7 overexpression leads to an increased fraction of cells in G2/M,
direct down-regulation of Cdc34 and stabilization of Wee1 kinase in primary
fibroblasts. 2009.
Journal of Biological Chemistry (JBC)Online early release
Full Text
.
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,
Highlighted in Nature
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.
Reviewing activities
Ad hoc reviewer for Bioinformatics, Genomics, Physical Biology, BMC Bioinformatics, BMC Systems Biology, Genome Biology, PLoS Computational Biology, PLoS ONE, Algorithms in Molecular Biology, RNA, Cancer Research, Molecular Systems Biology.
Ad hoc grant reviewer for NSF.
Languages
French, 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 1998 to 2002, I co-held the world record for 100km team indoor rowing (using Concept II ergometers, team consisted of 10 rowers), with the University of Nottingham.
Acting: from 2000 to 2002, I was an actor in the "Theatre du Passant" group in Montpellier. I had the main role (the King) in "Genousie", a play by Rene de Obaldia.
