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Assembling single-cell genomes and mini-metagenomes from chimeric MDA products.
Nurk S, Bankevich A, Antipov D, Gurevich AA, Korobeynikov A, Lapidus A, Prjibelski AD, Pyshkin A, Sirotkin A, Sirotkin Y, Stepanauskas R, Clingenpeel SR, Woyke T, McLean JS, Lasken R, Tesler G, Alekseyev MA, Pevzner PA. Nurk S, et al. Among authors: korobeynikov a. J Comput Biol. 2013 Oct;20(10):714-37. doi: 10.1089/cmb.2013.0084. J Comput Biol. 2013. PMID: 24093227 Free PMC article.
ExSPAnder: a universal repeat resolver for DNA fragment assembly.
Prjibelski AD, Vasilinetc I, Bankevich A, Gurevich A, Krivosheeva T, Nurk S, Pham S, Korobeynikov A, Lapidus A, Pevzner PA. Prjibelski AD, et al. Among authors: korobeynikov a. Bioinformatics. 2014 Jun 15;30(12):i293-301. doi: 10.1093/bioinformatics/btu266. Bioinformatics. 2014. PMID: 24931996 Free PMC article.
Assembling short reads from jumping libraries with large insert sizes.
Vasilinetc I, Prjibelski AD, Gurevich A, Korobeynikov A, Pevzner PA. Vasilinetc I, et al. Among authors: korobeynikov a. Bioinformatics. 2015 Oct 15;31(20):3262-8. doi: 10.1093/bioinformatics/btv337. Epub 2015 Jun 3. Bioinformatics. 2015. PMID: 26040456
hybridSPAdes: an algorithm for hybrid assembly of short and long reads.
Antipov D, Korobeynikov A, McLean JS, Pevzner PA. Antipov D, et al. Among authors: korobeynikov a. Bioinformatics. 2016 Apr 1;32(7):1009-15. doi: 10.1093/bioinformatics/btv688. Epub 2015 Nov 20. Bioinformatics. 2016. PMID: 26589280 Free PMC article.
metaSPAdes: a new versatile metagenomic assembler.
Nurk S, Meleshko D, Korobeynikov A, Pevzner PA. Nurk S, et al. Among authors: korobeynikov a. Genome Res. 2017 May;27(5):824-834. doi: 10.1101/gr.213959.116. Epub 2017 Mar 15. Genome Res. 2017. PMID: 28298430 Free PMC article.
Dereplication of microbial metabolites through database search of mass spectra.
Mohimani H, Gurevich A, Shlemov A, Mikheenko A, Korobeynikov A, Cao L, Shcherbin E, Nothias LF, Dorrestein PC, Pevzner PA. Mohimani H, et al. Among authors: korobeynikov a. Nat Commun. 2018 Oct 2;9(1):4035. doi: 10.1038/s41467-018-06082-8. Nat Commun. 2018. PMID: 30279420 Free PMC article.
MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities.
Cao L, Gurevich A, Alexander KL, Naman CB, Leão T, Glukhov E, Luzzatto-Knaan T, Vargas F, Quinn R, Bouslimani A, Nothias LF, Singh NK, Sanders JG, Benitez RAS, Thompson LR, Hamid MN, Morton JT, Mikheenko A, Shlemov A, Korobeynikov A, Friedberg I, Knight R, Venkateswaran K, Gerwick WH, Gerwick L, Dorrestein PC, Pevzner PA, Mohimani H. Cao L, et al. Among authors: korobeynikov a. Cell Syst. 2019 Dec 18;9(6):600-608.e4. doi: 10.1016/j.cels.2019.09.004. Epub 2019 Oct 16. Cell Syst. 2019. PMID: 31629686 Free PMC article.
45 results