Career
- SPbU, Teacher assistant, 2016 – present time
- Center for Algorithmic Biotechnology, SPbU, Junior Researcher, 2015 – present time
- SPbAU, Teacher, 2012 – present time
- Algorithmic Biology Lab,SPbAU, Researcher, 2011 – 2016
- Algorithmic Biology Lab, SPbAU, Intern, 2011
Education
- St. Petersburg Staet University, expected degree: PhD, 2017
- St. Petersburg University of the Russian Academy of Sciences, MSc in software engineering, 2010–2012
- Academy of Modern Software Engineering, 2009–2011
- St. Petersburg State Technical University, BSc in information technologies (magna cum laude), 2006–2010
- Lyceum “Physical-Technical High School” of the Russian Academy of Sciences, 2004–2006
Selected publications
- Bankevich, A., Nurk, S., Antipov, D., Gurevich, A.A., Dvorkin, M., Kulikov, A.S., Lesin, V.M., Nikolenko, S.I., Pham, S., Prjibelski, A.D. and Pyshkin, A.V., 2012. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Journal of computational biology, 19(5), pp.455-477.
- Prjibelski, A.D., Vasilinetc, I., Bankevich, A., Gurevich, A., Krivosheeva, T., Nurk, S., Pham, S., Korobeynikov, A., Lapidus, A. and Pevzner, P.A., 2014. ExSPAnder: a universal repeat resolver for DNA fragment assembly.Bioinformatics, 30(12), pp.i293-i301.
- Vasilinetc, I., Prjibelski, A.D., Gurevich, A., Korobeynikov, A. and Pevzner, P.A., 2015. Assembling short reads from jumping libraries with large insert sizes. Bioinformatics, 31(20), pp.3262-3268.
- Bushmanova, E., Antipov, D., Lapidus, A., Suvorov, V. and Prjibelski, A.D., 2016. rnaQUAST: a quality assessment tool for de novo transcriptome assemblies. Bioinformatics, 32(14), pp.2210-2212.
Talks & posters
- ExSPAnder: a Universal Repeat Resolver for DNA Fragment Assembly, ISMB 2014, Boston, USA, July 2014
- New Features in SPAdes Genome Assembler (Poster), ISMB 2014, Boston, USA, July 2014
- New Frontiers of Genome Assembly with SPAdes 3.1, BOSC 2014, Boston, USA, July 2014
- Genome Draft Assembly Algorithms: From the Very Beginning till Present-day Problems, High-Throughput Sequencing in Genomics, Novosibirsk, Russia, July 2013
- Path-Extend: A New Approach for Repeat Resolution in Genome Assembly (Poster), WABI 2012, Ljubljana, Slovenia, August 2012
Awards
- Ian Lawson Van Toch Memorial Award for Outstanding Student Paper, ISMB 2014, Boston, USA, July 2014
Teaching
Full courses
- NGS Data Analysis, Spring 2017
- Introduction to Bioinformatics for Biologists, Fall 2017
- NGS Data Analysis, Fall 2016
- NGS Data Analysis, Spring 2015
- Algorithms in Bioinformatics, Fall 2014
- Algorithms in Bioinformatics, Spring 2014
- NGS Data Analysis, Fall 2013
- NGS Data Analysis, Fall 2012
- NGS Data Analysis, Spring 2012
Workshops and schools
- Short Read Alignment, Genomic Bioinformatics Workshop, St. Petersburg, Russia, April 2017
- Assembling Bacterial Genomes with SPAdes, Genomic Bioinformatics Workshop, St. Petersburg, Russia, April 2017
- Assembling Bacterial Genomes with SPAdes, Genomic Bioinformatics Workshop, St. Petersburg, Russia, November 2016
- Assembling Bacterial Genomes Workshop, Pisa, Italy, April 2016
- Assembling Bacterial Genomes with SPAdes, Genomic Bioinformatics Workshop, St. Petersburg, Russia, November 2015
- Assembling Bacterial Genomes: SPAdes, QUAST, Genomic Bioinformatics Workshop, Moscow, Russia, November 2015
- Introduction to NGS, Introduction to Algorithms in Bioinformatics, Bioinformatics Summer School 2015, Moscow, July 2015
- Assembling Bacterial Genomes with SPAdes, Genomic Bioinformatics Workshop, St. Petersburg, Russia, April 2015
- Assembling Bacterial Genomes with SPAdes, Working with Bacterial Genomes Workshop, Helsinki, Finland, October 2014
- Genome Assembly Future, Bioinformatics Summer School 2014, St. Petersburg, August 2014
- Introduction to NGS, Bioinformatics Summer School 2013, Moscow, August 2013
- Introduction to Genome Assembly, System biology and Bioinformatics School, Novosibirsk, Russia, July 2013
Online courses
- Introduction to Linux (in Russian)
Interests
Algorithms, bioinformatics, genomics, transcriptomics, genome assembly, software engineering
Hobbies
Ultimate frisbee, alpine skiing, volleyball, water tourism, trekking, hiking