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MORPH-PRO: a novel algorithm and web server for protein morphing.
Castellana NE, Lushnikov A, Rotkiewicz P, Sefcovic N, Pevzner PA, Godzik A, Vyatkina K. Castellana NE, et al. Among authors: pevzner pa. Algorithms Mol Biol. 2013 Jul 11;8(1):19. doi: 10.1186/1748-7188-8-19. Algorithms Mol Biol. 2013. PMID: 23844614 Free PMC article.
Top-down analysis of protein samples by de novo sequencing techniques.
Vyatkina K, Wu S, Dekker LJ, VanDuijn MM, Liu X, Tolić N, Luider TM, Paša-Tolić L, Pevzner PA. Vyatkina K, et al. Among authors: pevzner pa. Bioinformatics. 2016 Sep 15;32(18):2753-9. doi: 10.1093/bioinformatics/btw307. Epub 2016 May 14. Bioinformatics. 2016. PMID: 27187201 Free PMC article.
Application of de novo sequencing tools to study abiogenic peptide formations by tandem mass spectrometry. The case of homo-peptides from glutamic acid complicated by substitutions of hydrogen by sodium or potassium atoms.
Terterov I, Vyatkina K, Kononikhin AS, Boitsov V, Vyazmin S, Popov IA, Nikolaev EN, Pevzner P, Dubina M. Terterov I, et al. Rapid Commun Mass Spectrom. 2014 Jan 15;28(1):33-41. doi: 10.1002/rcm.6757. Rapid Commun Mass Spectrom. 2014. PMID: 24285388
De Novo Sequencing of Peptides from Top-Down Tandem Mass Spectra.
Vyatkina K, Wu S, Dekker LJ, VanDuijn MM, Liu X, Tolić N, Dvorkin M, Alexandrova S, Luider TM, Paša-Tolić L, Pevzner PA. Vyatkina K, et al. Among authors: pevzner pa. J Proteome Res. 2015 Nov 6;14(11):4450-62. doi: 10.1021/pr501244v. Epub 2015 Oct 13. J Proteome Res. 2015. PMID: 26412692
SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing.
Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA. Bankevich A, et al. Among authors: pevzner pa. J Comput Biol. 2012 May;19(5):455-77. doi: 10.1089/cmb.2012.0021. Epub 2012 Apr 16. J Comput Biol. 2012. PMID: 22506599 Free PMC article.
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: pevzner pa. J Comput Biol. 2013 Oct;20(10):714-37. doi: 10.1089/cmb.2013.0084. J Comput Biol. 2013. PMID: 24093227 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: pevzner pa. Bioinformatics. 2015 Oct 15;31(20):3262-8. doi: 10.1093/bioinformatics/btv337. Epub 2015 Jun 3. Bioinformatics. 2015. PMID: 26040456
227 results