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Publications

Rodriguez-Horta E, Weigt M. On the effect of phylogenetic correlations in coevolution-based contact prediction in proteins. PLOS Computational Biology. 17, pp.1-17 (2021).
Le Moigne T, Gurrieri L, Crozet P, Marchand CH, Zaffagnini M, Sparla F, Lemaire SD, Henri J. Crystal structure of chloroplastic thioredoxin z defines a type-specific target recognition. The Plant Journal. 107, pp.434-447 (2021).
Rodriguez-Horta E, Lage A, Weigt M, Barrat-Charlaix P. Global multivariate model learning from hierarchically correlated data. J. Stat. Mech. (2021).
Pérez-Pérez MEsther, Lemaire SD, Crespo JL. The ATG4 protease integrates redox and stress signals to regulate autophagy. Journal of Experimental Botany. 72, pp.3340-3351 (2021).
Zea DJavier, Laskina S, Baudin A, Richard H, Laine E. Assessing conservation of alternative splicing with evolutionary splicing graphs. Genome Res. 31(8), pp.1462-1473 (2021).
Laine E, Eismann S, Elofsson A, Grudinin S. Protein sequence-to-structure learning: Is this the end(-to-end revolution)?. Proteins: Structure, Function, and Bioinformatics. (2021).
Colas C, Laine E. Targeting Solute Carrier Transporters through Functional Mapping. Trends Pharmacol Sci. 42(1), pp.3-6 (2021).
Roux P, Salort D, Xu Z. Adaptation to DNA damage as a bet-hedging mechanism in a fluctuating environment. R Soc Open Sci. 8(8), pp.210460 (2021).
Pérez-Vargas J§, Teppa E§, Amirache F, Boson B, R de Oliveira R, Combet C, Böckmann A, Fusil F, Freitas N, Carbone A*, Cosset FL*. A fusion peptide in preS1 and the human protein-disulfide isomerase ERp57 are involved in HBV membrane fusion process. eLife. (2021).
Danko D, Bezdan D, Afshin EE, Ahsanuddin S, Bhattacharya C, Butler DJ, Chng KRei, Donnellan D, Hecht J, Jackson K, Kuchin K, Karasikov M, Lyons A, Mak L, Meleshko D, Mustafa H, Mutai B, Neches RY, Ng A, Nikolayeva O, Nikolayeva T, Png E, Ryon KA, Sanchez JL, Shaaban H, Sierra MA, Thomas D, Young B, Abudayyeh OO, Alicea J, Bhattacharyya M, Blekhman R, Castro-Nallar E, Cañas AM, Chatziefthimiou AD, Crawford RW, De Filippis F, Deng Y, Desnues C, Dias-Neto E, Dybwad M, Elhaik E, Ercolini D, Frolova A, Gankin D, Gootenberg JS, Graf AB, Green DC, Hajirasouliha I, Hastings JJA, Hernandez M, Iraola G, Jang S, Kahles A, Kelly FJ, Knights K, Kyrpides NC, Łabaj PP, Lee PKH, Leung MHY, Ljungdahl PO, Mason-Buck G, McGrath K, Meydan C, Mongodin EF, Moraes MOzorio, Nagarajan N, Nieto-Caballero M, Noushmehr H, Oliveira M, Ossowski S, Osuolale OO, Özcan O, Paez-Espino D, Rascovan N, Richard H, Rätsch G, Schriml LM, Semmler T, Sezerman OU, et al.. A global metagenomic map of urban microbiomes and antimicrobial resistance. Cell . (2021).
Pedruzzi G, IM Rouzine. An evolution-based high-fidelity method of epistasis measurement: Theory and application to influenza. PLOS PathogensPLOS Pathogens. 17(6), pp.e1009669 - (2021).
Panlilio M, Grilli J, Tallarico G, Iuliani I, Sclavi B, Cicuta P, Cosentino Lagomarsino M. Threshold accumulation of a constitutive protein explains E. coli cell-division behavior in nutrient upshifts. Proceedings of the National Academy of Sciences. 118, (2021).
Droghetti R, Agier N, Fischer G, Gherardi M, Cosentino Lagomarsino M. An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles. Krishna S (Eds.). eLife. 10, pp.e63542 (2021).
Blaiseau PLouis, Holmes AM. Diauxic Inhibition: Jacques Monod's Ignored Work. J Hist Biol. (2021).
Vicedomini R, Blachon C, Oteri F, Carbone A. MyCLADE: a multi-source domain annotation server for sequence functional exploration. Nucleic Acids Research. (2021).

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