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ORCIDVytas K. Svedas
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Journal Articles
- 2022
[j13]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): 985-989 (2022)- 2021
- [j12]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): 94-99 (2021) - [j11]Dmitry A. Suplatov, Maksim V. Shegay, Yana A. Sharapova, Ivan V. 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): 12382-12398 (2021) - 2020
- [j10]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): 2040011:1-2040011:18 (2020) - [j9]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): 3692-3696 (2020) - [j8]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): W65-W71 (2020) - 2019
- [j7]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): 4456-4458 (2019) - [j6]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): W308-W314 (2019) - 2018
- [j5]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): 1583-1585 (2018) - [j4]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): 1840005:1-1840005:15 (2018) - [j3]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): 30-33 (2018) - 2016
- [j2]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): 1641008:1-1641008:15 (2016) - 2014
- [j1]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): 344-349 (2014)
Conference and Workshop Papers
- 2019
- [c1]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: 249-264
Coauthor Index
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