Vytas K. Svedas

Publication Activity (10 Years)

Years Active: 2014-2022
Publications (10 Years): 13

Top Topics

Protein Families

Virtual Screening

Multiple Sequence Alignments

Top Venues

Nucleic Acids Res.

J. Bioinform. Comput. Biol.

Supercomput. Front. Innov.

Publications

Maksim V. Shegay, Vytas K. Svedas, Vladimir V. Voevodin, Dmitry A. Suplatov, Nina N. Popova
Guide tree optimization with genetic algorithm to improve multiple protein 3D-structure alignment. Bioinform. 38 (4) (2022)
Viktor V. Drobot, Evgeny M. Kirilin, Kirill E. Kopylov, Vytas K. Svedas
PLUMED Plugin Integration into High Performance Pmemd Program for Enhanced Molecular Dynamics Simulations. Supercomput. Front. Innov. 8 (4) (2021)
Dmitry A. Suplatov, Maksim V. Shegay, Yana A. Sharapova, Ivan Timokhin, Nina Popova, Vladimir V. Voevodin, Vytas K. Svedas
Co-designing HPC-systems by computing capabilities and management flexibility to accommodate bioinformatic workflows at different complexity levels. J. Supercomput. 77 (11) (2021)
Irina V. Gushchina, Aleksandra M. Polenova, Dmitry A. Suplatov, Vytas K. Svedas, Dmitry K. Nilov
vsFilt: A Tool to Improve Virtual Screening by Structural Filtration of Docking Poses. J. Chem. Inf. Model. 60 (8) (2020)
Dmitry A. Suplatov, Yana A. Sharapova, Vytas K. Svedas
EasyAmber: A comprehensive toolbox to automate the molecular dynamics simulation of proteins. J. Bioinform. Comput. Biol. 18 (6) (2020)
Dmitry A. Suplatov, Yana A. Sharapova, Elizaveta Geraseva, Vytas K. Svedas
Zebra2: advanced and easy-to-use web-server for bioinformatic analysis of subfamily-specific and conserved positions in diverse protein superfamilies. Nucleic Acids Res. 48 (Webserver-Issue) (2020)
Dmitry A. Suplatov, Daria Timonina, Yana A. Sharapova, Vytas K. Svedas
Yosshi: a web-server for disulfide engineering by bioinformatic analysis of diverse protein families. Nucleic Acids Res. 47 (Webserver-Issue) (2019)
Dmitry A. Suplatov, Yana A. Sharapova, Maksim V. Shegay, Nina N. Popova, Kateryna Fesko, Vladimir V. Voevodin, Vytas K. Svedas
High-Performance Hybrid Computing for Bioinformatic Analysis of Protein Superfamilies. RuSCDays (2019)
Maksim V. Shegay, Dmitry A. Suplatov, Nina N. Popova, Vytas K. Svedas, Vladimir V. Voevodin
parMATT: parallel multiple alignment of protein 3D-structures with translations and twists for distributed-memory systems. Bioinform. 35 (21) (2019)
Dmitry A. Suplatov, Kirill E. Kopylov, Nina N. Popova, Vladimir V. Voevodin, Vytas K. Svedas
Mustguseal: a server for multiple structure-guided sequence alignment of protein families. Bioinform. 34 (9) (2018)
Dmitry A. Suplatov, Yana A. Sharapova, Daria Timonina, Kirill E. Kopylov, Vytas K. Svedas
The visualCMAT: A web-server to select and interpret correlated mutations/co-evolving residues in protein families. J. Bioinform. Comput. Biol. 16 (2) (2018)
Yana A. Sharapova, Dmitry A. Suplatov, Vytas K. Svedas
Simulating the Long-timescale Structural Behavior of Bacterial and Influenza Neuraminidases with Different HPC Resources. Supercomput. Front. Innov. 5 (3) (2018)
Dmitry A. Suplatov, Nina Popova, Sergey A. Zhumatiy, Vladimir V. Voevodin, Vytas K. Svedas
Parallel workflow manager for non-parallel bioinformatic applications to solve large-scale biological problems on a supercomputer. J. Bioinform. Comput. Biol. 14 (2) (2016)
Dmitry A. Suplatov, Eugeny M. Kirilin, Mikhail Arbatsky, Vakil Takhaveev, Vytas K. Svedas
pocketZebra: a web-server for automated selection and classification of subfamily-specific binding sites by bioinformatic analysis of diverse protein families. Nucleic Acids Res. 42 (Webserver-Issue) (2014)