Publications of NeMo

2009

Durot M, Bourguignon PY, Schachter, V.
 “Genome-scale models of bacterial metabolism: reconstruction and applications”
 FEMS Microbiol Rev. 2009 Jan;33(1):164-90.

2008

Durot M, Le Fevre F, de Berardinis V, Kreimeyer A, Vallenet D, Combe C, Smidtas S, Salanoubat M, Weissenbach J, Schachter V.
 “Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data”
 BMC Syst Biol. 2008 Oct 7;2(1):85

de Berardinis V, Vallenet D, Castelli V, Besnard M, Pinet A, Cruaud C, Samair S, Lechaplais C, Gyapay G, Richez C, Durot M, Kreimeyer A, Le Fèvre F, Schächter V, Pezo V, Döring V, Scarpelli C, Médigue C, Cohen GN, Marlière P, Salanoubat M, Weissenbach J.
 “A complete collection of single-gene deletion mutants of Acinetobacter baylyi ADP1”
 Mol Syst Biol. 2008;4:174

Lèbre S. and Bourguignon P.-Y.
 “An EM algorithm for estimation in the Mixture Transition Distribution model”
 Journal of Statistical Computation and Simulation. 2008. 78(8):713-729

iGEM-Paris’s team
 “First French team success during iGEM Synthetic biology competition”
 Medecine/Sciences. 2008. 24 : 541-4

2007

Le Fèvre, F., Smidtas, S. and Schächter, V.
 “Cyclone : Java-based querying and computing with Pathway Genome Databases”
 Bioinformatics. 2007. 23(10):1299-1300

Smidtas S, Yartseva A, Scachter V, Kepes F
 “Model of Interactions in Biology and Application to Heterogeneous Network in Yeast”
 Comptes Rendus Biologies. 2007. 329 (12) 945-952 doi:10.1016/j.crvi.2006.06.010

2006

Bourguignon PY, Danos V, Kepes F, Smidtas S and Schächter V.
 “Property-driven statistics of biological networks”
 Transactions in Computational Systems Biology. 2006 (In press).

Smidtas S, Schächter V, and Képès F.
 “The adaptive filter of the yeast galactose pathway”
 Journal of Theoretical Biology. 2006 Sep 21;242(2):372-81.

2005

D’Alché-Buc F and Schächter V.
 “Modeling of biological networks”
 Proceedings of XI International Symposium on Applied Stochastic Models and Data Analysis (AMSDA). 2004.

2004

Chabrier N, Chiaverini M, Danos V, Fages F, Schächter V.
 “Modeling and querying biochemical interaction networks”
 Theoretical Computer Science. 2004. Vol. 325, Issue 1 , 25-44.