Pavel Pevzner

Center Director

Publications

  1. Nurk S., Pevzner P. A. SPArcle: Identifying Microbial Genome Variations with Colored de Bruijn Graphs. Manuscript in preparation., 2016
  2. Nurk S., Meleshko D., Korobeynikov A., Pevzner P. A. metaSPAdes: a new versatile de novo metagenomics assembler. arXiv preprint, 2016
  3. Antipov D., Hartwick N., Shen M., Raiko M., Lapidus A., Pevzner P. A. plasmidSPAdes: Assembling Plasmids from Whole Genome Sequencing Data. Bioinformatics, 2016
  4. Safonova Y., Shlemov A., Bzikadze A., Bankevich S., Pevzner P. A. A novel toolkit for analysis of adaptive immune repertoires using immunosequencing and mass spectra data. Poster., 2016
  5. 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
  6. Safonova Y., Bankevich A., Pevzner P. A. dipSPAdes: assembler for highly polymorphic diploid genomes. In Sharan, Roded (eds.) RECOMB 2014, LNCS (8394). pp. 265-279. Springer, Heidelberg, 2014
  7. Safonova Y., Bankevich A., Pevzner P. A. dipSPAdes: assembler for highly polymorphic diploid genomes. Talk., 2014
  8. 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
  9. Antipov D., Krasheninnikova K., Pevzner P. A. Using uneven coverage depth in bacterial single-cell repeat resolution. (poster), 2013
  10. Nikolenko S., Korobeynikov A., Pevzner P. A. BayesHammer: Bayesian clustering for error correction in single-cell sequencing. BMC Genomics, 2013
  11. Vyahhi N., Pyshkin A., Pham S., Pevzner P. A. From de Bruijn Graphs to Rectangle Graphs for Genome Assembly. Lecture Notes in Bioinformatics, 2012
  12. Prjibelski A., Krivosheeva T., Bankevich A., Nurk S., Pham S., Pevzner P. A. Path-Extend: An Approach for Repeat Resolution in de novo Genome Assembly. , 2012
  13. Sirotkin Y., Liu X., Gladkikh M., Pevzner P. A., Vyatkina K. Peptide Sequence Tags for Top-Down Spectra. (poster, session TP25), 2012
  14. Pham S., Antipov D., Sirotkin A., Tesler G., Pevzner P. A., Alekseyev M. A. Pathset Graphs: A Novel Approach for Comprehensive Utilization of Mate-Pairs in Genome Assembly. Lecture Notes in Computer Science, 2012
  15. Sirotkin Y., Liu X., Gladkikh M., Pevzner P. A., Vyatkina K. Peptide Sequence Tags for Top-Down Spectra. (talk), 2012
  16. Pevzner P. A. De novo sequencing of peptide antibiotics. (talk), 2011
  17. Alekseyev M. A., Pevzner P. A. The Birth and Death of Fragile Regions in Human Genome. (highlight track paper), 2011
  18. Nikolenko S., Alekseyev M. A., Pevzner P. A. Bayesian Evaluation of de novo Genome Assembly. (poster), 2011
  19. Nikolenko S., Nurk S., Bankevich A., Alekseyev M. A., Pevzner P. A. Expandable de novo genome assembler for short-read sequence data. (HiTSeq poster), 2011
  20. Liu X., Sirotkin Y., Shen Y., Anderson G., Tsai Y. S., Ting Y. S., Goodlett D. R., Smith R. D., Bafna V., Pevzner P. A. Protein Identification Using Top-Down Spectra. (poster), 2011
  21. Ng J., Amir A., Pevzner P. A. Blocked Pattern Matching Problem and its Applications in Proteomics. (paper, talk), 2011
  22. Medvedev P., Pham S., Chaisson M., Tesler G., Pevzner P. A. Paired de Bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers. (paper, talk), 2011
  23. Pevzner P. A. How Will the Human Genome Evolve in the Next Million Years? (talk), 2011
  24. Mohimani H., Liu W. T., Yang Y. L., Gaudencio S., Fenical W., Dorrestein P., Pevzner P. A. Multiplex De Novo Sequencing of Peptide Antibiotics. (paper, talk), 2011