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Publications

Bernardes JS, Vieira FRJ, Zaverucha G, Carbone A.
A multi-objective optimization approach accurately resolves protein domain architectures.
Bioinformatics. (2015).
Gillet-Markowska A, Louvel G, Fischer G.
bz-rates: A Web Tool to Estimate Mutation Rates from Fluctuation Analysis.
G3: Genes|Genomes|Genetics. (2015).
Gillet-Markowska A, Richard H, Fischer G, Lafontaine I.
Ulysses: accurate detection of low-frequency structural variations in large insert-size sequencing libraries.
Bioinformatics. 31(6), pp.801-8 (2015).
Merhej J, Delaveau T, Guitard J, Palancade B, Hennequin C, Garcia M, Lelandais G, Devaux F.
Yap7 is a Transcriptional Repressor of Nitric Oxide Oxidase in Yeasts, which arose from Neofunctionalization after Whole Genome Duplication.
Mol Microbiol. (2015).
Figliuzzi M, De Martino A, Marinari E.
RNA-Based Regulation: Dynamics and Response to Perturbations of Competing RNAs.
Biophysical Journal. 107(4), pp.1011-1022 (2015).
Scolari VF, Cosentino Lagomarsino M.
Combined collapse by bridging and self-adhesion in a prototypical polymer model inspired by the bacterial nucleoid.
Soft Matter. 11, pp.1677-1687 (2015).
Zamparo M, Chianale F, Tebaldi C, Cosentino Lagomarsino M, Nicodemi M, Gamba A.
Dynamic membrane patterning, signal localization and polarity in living cells.
Soft matter. 11, pp.838–849 (2015).
Bernardes JS, Vieira F, Costa L, Zaverucha G.
Evaluation and improvements of clustering algorithms for detecting remote homologous protein families.
BMC Bioinformatics. 16(1), pp.34 (2015).
Friedrich A, Jung P, Reisser C, Fischer G, Schacherer J.
Population genomics reveals chromosome-scale heterogeneous evolution in a protoploid yeast.
Molecular Biology and Evolution. 32(1), (2015).
Fumagalli MR, Osella M, Thomen P, Heslot F, Cosentino Lagomarsino M.
Speed of evolution in large asexual populations with diminishing returns.
Journal of Theoretical Biology. 365, pp.23-31 (2015).
Fortunato AE, Annunziata R, Jaubert M, Bouly J-P, Falciatore A.
Dealing with light: The widespread and multitasking cryptochrome/photolyase family in photosynthetic organisms.
J Plant Physiol. 172, pp.42-54 (2015).
IM Rouzine, Coffin JM, Weinberger LS.
Fifteen years later: hard and soft selection sweeps confirm a large population number for HIV in vivo.
PLoS Genet. 10(2), pp.e1004179 (2014).
IM Rouzine, Razooky BS, Weinberger LS.
Stochastic variability in HIV affects viral eradication.
Proc Natl Acad Sci U S A. 111(37), pp.13251-2 (2014).
Batorsky R, Sergeev RA, IM Rouzine.
The route of HIV escape from immune response targeting multiple sites is determined by the cost-benefit tradeoff of escape mutations.
PLoS Comput Biol. 10(10), pp.e1003878 (2014).
Zhu S, Riou M, C Yao A, Carvalho S, Rodriguez PC, Bensaude O, Paoletti P, Ye-Lehmann S.
Genetically encoding a light switch in an ionotropic glutamate receptor reveals subunit-specific interfaces.
Proc Natl Acad Sci U S A. 111(16), pp.6081-6 (2014).

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