Alexey Gurevich

Junior Research Fellow

Birthday: 21 March 1989. Married, has a daughter (born in 2015).

Profiles: Google Scholar, LinkedIn.

Career:

Algorithmic Biology Lab/Center for Algorithmic Biotechnology, Research Scientist, 2011 – present time

Algorithmic Biology Lab, Intern, 2011

St. Petersburg State Polytechnic University, Research Fellow, 2009-2010

Education:

Saint Petersburg Academic University of the Russian Academy of Sciences, PhD student in Bioinformatics, 2012 –  present time

Saint Petersburg Academic University of the Russian Academy of Sciences, MSc in Software Engineering (summa cum laude), 2010 – 2012

Saint Petersburg State Polytechnic University, BSc in Information Technologies (summa cum laude), 2006 – 2010

Lyceum “Physical-Technical High School” of the Russian Academy of Sciences, 2002 – 2006

Projects:

  • Natural Products Discovery: Dereplicator and other projects (since 2015, ongoing)
  • Genome Assembly Evaluation: QUAST (since 2011, ongoing), including MetaQUAST (2015) and Icarus (2016)
  • Genome Assembly: SPAdes (2011-2015)
  • Cancer Genomics: collaboration with AstraZeneca Oncology (2014-2015)

Conferences

Teaching

  • Introduction to Bioinformatics at St. Petersburg State University, Fall 2016
  • Informatics/Programming (Java/Python/Delphi) at Lyceum “Physical-Technical High School”,  2012-2015
  • Linux for Beginners (MOOC at Stepic, in Russian), 2014
  • Journal Club in Algorithmic Bioinformatics at St. Petersburg Academic University, Fall 2014
  • Scientific Software Design at St. Petersburg Academic University, Spring 2014
  • Python for Beginners, Bioinformatics Summer School 2013, Moscow, August 2013

Supervising:

  • Sergey Chernov, “Application of SILAC data in antibiotic discovery” (St. Peterbsurg Academic University, Master student + Internship at the Lab), Summer, Fall 2016, Spring 2017
  • Denis Konoplev, “Finding structural motifs in Natural Products” (St. Peterbsurg Academic University, first year Bachelor student), Spring 2016
  • Andrey Slabodkin, “Optimization of spectral network parameters” (St. Peterbsurg Academic University, first year Bachelor student), Spring 2016
  • Nikolay Kapralov, “Evaluating Quality and Enhancing Optical Chemical Structure Recognition Tools” (student of Bioinformatics Institute), Fall 2015
  • Alla Mikheenko, “MetaQUAST: Quality Assessment Tool for Metagenome Assemblies”  (Internship at the Lab), Summer 2015
  • Gleb Valin, “Interactive contig alignment browser” (St. Peterbsurg Academic University, first year Bachelor student), Spring 2015
  • Anna Lioznova, “Misassemblies detection without reference” (St. Peterbsurg Academic University, first year Master student), Spring 2014
  • Maxim Stepachev, “Interactive visualization of contig alignment” (student of Bioinformatics Institute), Spring 2013
  • Vlad Saveliev, “Web-interface for QUAST” (Internship at the Lab), Summer 2012

Scientific Interests:

Genome Assembly Evaluation, Antibiotics Sequencing, Software Engineering

Hobbies:

Soccer, snowboard

Software

Publications

  1. Lapidus A., Antipov D., Bankevich A., Gurevich A., Korobeynikov A., Nurk S., Prjibelski A., Safonova Y., Vasilinetc I., Pevzner P. A. New Frontiers of Genome Assembly with SPAdes 3.0. (poster), 2014
  2. Nurk S., Bankevich A., Antipov D., Gurevich A., Korobeynikov A., Lapidus A., Prjibelski A., Pyshkin A., Sirotkin A., Sirotkin Y., Stepanauskas R., McLean J., Lasken R., Clingenpeel S., Woyke T., Tesler G., Alekseyev M. A., Pevzner P. A. Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads. Lecture Notes in Computer Science, 2013
  3. Gurevich A., Saveliev V., Vyahhi N., Tesler G. Quality assessment of genome assemblies (web tool). (poster), 2013