Publications

1. Nurk S., Meleshko D., Korobeynikov A., Pevzner P. A. metaSPAdes: a new versatile de novo metagenomics assembler. Genome Research, 2017
2. Nurk S., Gorshkov Y., Pevzner P.A. Reconstructing individual genomes from multiple metagenomic samples with MTS pipeline. Manuscript in preparation., 2017
3. Guzman G. I., Utrilla J., Nurk S., Brunk E., Monk J. M., Ebrahim A., Palsson B. A., Feist A. M. Model-driven discovery of underground metabolic functions in Escherichia coli. Proceedings of the National Academy of Sciences, 2015
4. Prjibelski A., Vasilinetc I., Bankevich A., Gurevich A., Krivosheeva T., Nurk S., Pham S., Korobeynikov A., Lapidus A., Pevzner P. A. ExSPAnder: a universal repeat resolver for DNA fragment assembly. Bioinformatics, 2014
5. Lin Y., Nurk S., Pevzner P. A. What is the difference between the breakpoint graph and the de Bruijn graph? BMC Genomics, 2014
6. Nurk S., Bankevich A., Antipov D., Gurevich A., Korobeynikov A., Lapidus A., Prjibelski A., Pyshkin A., Sirotkin A., Sirotkin Y., Stepanauskas R., Clingenpeel S. R., Woyke T., Mclean J. S., Lasken R., Tesler G., Alekseyev M. A., Pevzner P. A. Assembling single-cell genomes and mini-metagenomes from chimeric MDA products. Journal of Computational Biology, 2013
7. McLean J. S., Lombardo M.-J., Ziegler M. G., Novotny M., Yee-Greenbaum J., Badger J. H., Tesler G., Nurk S., Lesin V., Brami D., Hall A. P., Edlund A., Allen L. Z., Durkin S., Reed S., Torriani F., Nealson K. H., Pevzner P. A., Friedman R. M., Venter J. C., Lasken R. S. Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform. Genome Research, 2013
8. Bankevich A., Nurk S., Antipov D., Gurevich A., Dvorkin M., Kulikov A. S., Lesin V., Nikolenko S., Pham S., Prjibelski A., Pyshkin A., Sirotkin A., Vyahhi N., Tesler G., Alekseyev M. A., Pevzner P. A. SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing. Journal of Computational Biology, 2012
9. Nurk S. An Upper Bound for Circuit SAT. PDMI preprint 10/2009, 2009