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Publications

Weigt M, White RA, Szurmant H, Hoch JA, Hwa T.
Identification of direct residue contacts in protein-protein interaction by message passing.
Proc Natl Acad Sci U S A. 106(1), pp.67-72 (2009).
Bailey AG, Lowe CP, Pagonabarraga I, Cosentino Lagomarsino M.
Accurate simulation dynamics of microscopic filaments using "caterpillar" Oseen hydrodynamics.
Phys Rev E Stat Nonlin Soft Matter Phys. 80(4 Pt 2), pp.046707 (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).
Fischer G, Thompson D, Wortman JRusso, Fairhead C.
Unraveling the genomic diversity of small eukaryotes.
Genome Biol. 10(12), pp.318 (2009).
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).
Koszul R, Fischer G.
A prominent role for segmental duplications in modeling eukaryotic genomes.
C R Biol. 332(2-3), pp.254-66 (2009).
Ciandrini L, Maffi C, Motta A, Bassetti B, Cosentino Lagomarsino M.
Feedback topology and XOR-dynamics in Boolean networks with varying input structure.
Phys Rev E Stat Nonlin Soft Matter Phys. 80(2 Pt 2), pp.026122 (2009).
Hu H, Wrogemann K, Kalscheuer V, Tzschach A, Richard H, Haas SA, Menzel C, Bienek M, Froyen G, Raynaud M, Van Bokhoven H, Chelly J, Ropers H, Chen W.
Erratum to: Mutation screening in 86 known X-linked mental retardation genes by droplet-based multiplex PCR and massive parallel sequencing.
Hugo J. 3(1-4), pp.83 (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)
Sclavi B.
Time-resolved footprinting for the study of the structural dynamics of DNA-protein interactions.
Biochem Soc Trans. 36(Pt 4), pp.745-8 (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).

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