Tracking Moving Objects in Anonymized Trajectories. - Nikolay Vyahhi; Spiridon Bakiras; Panos Kalnis; Gabriel Ghinita (DEXA, 2008)

Stochastic Approach to Binary Matrix Partitioning for Phylogenetic Networks. - Victoria Kusherbaeva; Nikolay Vyahhi (SYRCoDIS, 2008)

Swarming along the evolutionary branches sheds light on genome rearrangement scenarios. - Nikolay Vyahhi; Adrien Goëffon; Macha Nikolski; David James Sherman (GECCO, 2009)

From de Bruijn Graphs to Rectangle Graphs for Genome Assembly. - Nikolay Vyahhi; Alex Pyshkin; Son K. Pham; Pavel A. Pevzner (WABI, 2012)

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing. - Anton Bankevich; Sergey Nurk; Dmitry Antipov; Alexey A. Gurevich; Mikhail Dvorkin; Alexander S. Kulikov; Valery M. Lesin; Sergey I. Nikolenko; Son K. Pham; Andrey D. Prjibelski; Alex Pyshkin; Alexander Sirotkin 001; et al. (J. Comput. Biol., 2012)

Sibelia: A Scalable and Comprehensive Synteny Block Generation Tool for Closely Related Microbial Genomes. - Ilya Minkin; Anand Patel; Mikhail Kolmogorov; Nikolay Vyahhi; Son K. Pham (WABI, 2013)

The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability. - Jing-Woei Li; Dan M. Bolser; Magnus Manske; Federico Manuel Giorgi; Nikolay Vyahhi; Björn Usadel; Bernardo J. Clavijo; Ting-Fung Chan; Nathalie Wong; Daniel R. Zerbino; Maria Victoria Schneider (Briefings Bioinform., 2013)

QUAST: quality assessment tool for genome assemblies. - Alexey A. Gurevich; Vladislav Saveliev; Nikolay Vyahhi; Glenn Tesler (Bioinform., 2013)

Hyperstyle: A Tool for Assessing the Code Quality of Solutions to Programming Assignments. - Anastasiia Birillo; Ilya Vlasov; Artyom Burylov; Vitalii Selishchev; Artyom Goncharov; Elena Tikhomirova; Nikolay Vyahhi; Timofey Bryksin (SIGCSE (1), 2022)

Analyzing the Quality of Submissions in Online Programming Courses. - Maria Tigina; Anastasiia Birillo; Yaroslav Golubev; Hieke Keuning; Nikolay Vyahhi; Timofey Bryksin (SEET@ICSE, 2023)

Detecting Code Quality Issues in Pre-written Templates of Programming Tasks in Online Courses. - Anastasiia Birillo; Elizaveta Artser; Yaroslav Golubev; Maria Tigina; Hieke Keuning; Nikolay Vyahhi; Timofey Bryksin (ITiCSE (1), 2023)

Clustering MOOC Programming Solutions to Diversify Their Presentation to Students. - Elizaveta Artser; Anastasiia Birillo; Yaroslav Golubev; Maria Tigina; Hieke Keuning; Nikolay Vyahhi; Timofey Bryksin (Koli Calling, 2024)