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Publications

Bassetti B, Zarei M, Cosentino Lagomarsino M, Bianconi G. Statistical mechanics of the "Chinese restaurant process": lack of self-averaging, anomalous finite-size effects, and condensation. Phys Rev E Stat Nonlin Soft Matter Phys. 80(6 Pt 2), pp.066118 (2009).
Coesel S, Mangogna M, Ishikawa T, Heijde M, Rogato A, Finazzi G, Todo T, Bowler C, Falciatore A. Diatom PtCPF1 is a new cryptochrome/photolyase family member with DNA repair and transcription regulation activity. EMBO Rep. 10(6), pp.655-61 (2009).
Souciet J-L, Dujon B, Gaillardin C, Johnston M, Baret PV, Cliften P, Sherman DJ, Weissenbach J, Westhof E, Wincker P, Jubin C, Poulain J, Barbe V, Ségurens B, Artiguenave F, Anthouard V, Vacherie B, Val M-E, Fulton RS, Minx P, Wilson R, Durrens P, Jean G, Marck C, Martin T, Nikolski M, Rolland T, Seret M-L, Casaregola S, Despons L, Fairhead C, Fischer G, Lafontaine I, Leh V, Lemaire M, De Montigny J, Neuvéglise C, Thierry A, Blanc-Lenfle I, Bleykasten C, Diffels J, Fritsch E, Frangeul L, Goëffon A, Jauniaux N, Kachouri-Lafond R, Payen C, Potier S, Pribylova L, Ozanne C, Richard G-F, Sacerdot C, Straub M-L, Talla E. Comparative genomics of protoploid Saccharomycetaceae. Genome Res. 19(10), pp.1696-709 (2009).
Cosentino Lagomarsino M, Sellerio AL, Heijning PD, Bassetti B. Universal features in the genome-level evolution of protein domains. Genome Biol. 10(1), pp.R12 (2009).
Sellerio AL, Bassetti B, Isambert H, Cosentino Lagomarsino M. A comparative evolutionary study of transcription networks. The global role of feedback and hierachical structures. Mol Biosyst. 5(2), pp.170-9 (2009).
De Riso V, Raniello R, Maumus F, Rogato A, Bowler C, Falciatore A. Gene silencing in the marine diatom Phaeodactylum tricornutum. Nucleic Acids Res. 37(14), pp.e96 (2009).
Bernardes JS, Fernandez JH, Vasconcelos ATereza R. Structural descriptor database: a new tool for sequence-based functional site prediction. BMC Bioinformatics. 9, pp.492 (2008).
Costa J, Bernardes JS, Santos V, Zaverucha G Remote Homology Detection Through Discriminative Statistical Relational Learning. in The European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases. (2008)
Menezes RA, Amaral C, Batista-Nascimento L, Santos C, Ferreira RBoavida, Devaux F, Eleutherio ECA, Rodrigues-Pousada C. Contribution of Yap1 towards Saccharomyces cerevisiae adaptation to arsenic-mediated oxidative stress. Biochem J. 414(2), pp.301-11 (2008).
Brunet E, IM Rouzine, Wilke CO. The stochastic edge in adaptive evolution. Genetics. 179(1), pp.603-20 (2008).
Dutta RN, IM Rouzine, Smith SD, Wilke CO, Novella IS. Rapid adaptive amplification of preexisting variation in an RNA virus. J Virol. 82(9), pp.4354-62 (2008).
IM Rouzine, Brunet E, Wilke CO. The traveling-wave approach to asexual evolution: Muller's ratchet and speed of adaptation. Theor Popul Biol. 73(1), pp.24-46 (2008).
Saint-Georges Y, Garcia M, Delaveau T, Jourdren L, Le Crom S, Lemoine S, Tanty V, Devaux F, Jacq C. Yeast Mitochondrial Biogenesis: A Role for the PUF RNA-Binding Protein Puf3p in mRNA Localization. PLOS ONE. 3, pp.1-12 (2008).
Ye S, Köhrer C, Huber T, Kazmi M, Sachdev P, C Y Yan E, Bhagat A, RajBhandary UL, Sakmar TP. Site-specific incorporation of keto amino acids into functional G protein-coupled receptors using unnatural amino acid mutagenesis. J Biol Chem. 283(3), pp.1525-33 (2008).
Coesel S, Obornik M, Varela J, Falciatore A, Bowler C. Evolutionary Origins and Functions of the Carotenoid Biosynthetic Pathway in Marine Diatoms. Randau L (Eds.). PLoS ONE. 3(8), pp.e2896 (2008).

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