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Publications

Laine E, Grudinin S. HOPMA: Boosting Protein Functional Dynamics with Colored Contact Maps. The Journal of Physical Chemistry B. (2021).
Seoane B, Carbone A*. The complexity of protein interactions unravelled from structural disorder. PLoS Computational Biology. 17(1), (2021).
Aleksandrova AA, Sarti E, Forrest LR. MemSTATS: A Benchmark Set of Membrane Protein Symmetries and Pseudosymmetries. Journal of Molecular Biology. 432(2), pp.597 - 604 (2020).
Karami Y, Saighi P, Vanderhaegen R, Gerlier D, Longhi S, Laine E, Carbone A*. Predicting substitutions to modulate disorder and stability in coiled-coils. BMC Bioinformatics. 21(573 ), (2020).
Boto R, Peccati F, Laplaza R, Quan C, Carbone A*, Piquemal J-P, Maday Y, Contreras-García J. NCIPLOT4: fast, robust and quantitative analysis of noncovalent interactions. Journal of Chemical Theory and Computation. pp.4150–4158 (2020).
Grudinin S, Laine E, Hoffmann A. Predicting Protein Functional Motions: an Old Recipe with a New Twist. Biophysical Journal. (2020).
Ait-hamlat A, Zea DJavier, Labeeuw A, Polit L, Richard H, Laine E. Transcripts’ Evolutionary History and Structural Dynamics Give Mechanistic Insights into the Functional Diversity of the JNK Family. Journal of Molecular Biology. (2020).
Drillon G, Champeimont R, Oteri F, Fischer G, Carbone A*. Phylogenetic reconstruction based on synteny block and gene adjacencies. Molecular Biology and Evolution. 37(9), pp.2747–2762 (2020).
Teppa E, Zea D, Oteri F, Carbone A*. COVTree: Coevolution in OVerlapped sequences by Tree analysis server. Nucleic Acids Research. (2020).
David L, Vicedomini R, Richard H, Carbone A*. Targeted domain assembly for fast functional profiling of metagenomic datasets with S3A. Bioinformatics. (2020).
Teppa E, Nadalin F, Combet C, Zea D, David L, Carbone A*. Coevolution analysis of amino-acids reveals diversified drug resistance solutions in viral sequences: a case study of hepatitis B virus. Virus Evolution. 6(1), (2020).
Corsi F, Lavery R, Laine E, Carbone A*. Multiple protein-DNA interfaces unravelled by evolutionary information, physico-chemical and geometrical properties. PLoS Computational Biology. 16(2), (2020).
Laplaza R, Peccati F, Boto R, Quan C, Carbone A*, Piquemal J-P, Maday Y, Contreras-García J. NCIPLOT and the analysis of noncovalent interactions using the reduced density gradient. WIREs Computational Molecular Science. (2020).
Sarti E, Aleksandrova AA, Ganta SK, Yavatkar AS, Forrest LR. EncoMPASS: an online database for analyzing structure and symmetry in membrane proteins. Nucleic Acids Res. 47(D1), pp.D315 - D321 (2019).
Lensink MF, Brysbaert G, Nadzirin N, Velankar S, Chaleil RAG, Gerguri T, Bates PA, Laine E, Carbone A*, Grudinin S, Kong R, Liu R-R, Xu X-M, Shi H, Chang S, Eisenstein M, Karczynska A, Czaplewski C, Lubecka E, Lipska A, Krupa P, Mozolewska M, Golon Ł, Samsonov S, Liwo A, Crivelli S, Pagès G, Karasikov M, Kadukova M, Yan Y, Huang S-Y, Rosell M, Rodríguez-Lumbreras LAngel, Romero-Durana M, Díaz-Bueno L, Fernandez-Recio J, Christoffer C, Terashi G, Shin W-H, Aderinwale T, Subraman SRaghavendr, Kihara D, Kozakov D, Vajda S, Porter K, Padhorny D, Desta I, Beglov D, Ignatov M, Kotelnikov S, Moal IH, Ritchie DW, de Beauchêne IChauvot, Maigret B, Devignes M-D, Echartea MElisa Ruiz, Barradas-Bautista D, Cao Z, Cavallo L, Oliva R, Cao Y, Shen Y, Baek M, Park T, Woo H, Seok C, Braitbard M, Bitton L, Scheidman-Duhovny D, DapkŪnas J, Olechnovič K, Venclovas Č, Kundrotas PJ, Belkin S, Chakravarty D, Badal VD, Vakser IA, Vreven T, Vangaveti S, Borrman T, et al.. Blind prediction of homo- and hetero- protein complexes: The CASP13-CAPRI experiment. Proteins: Structure, Function, and BioinformaticsProteins: Structure, Function, and BioinformaticsProteins. (ja), (2019).

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