• 2184 Citations
  • 17 h-Index
20062020

Research output per year

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Research Output

2020
Open Access

MGnify: the microbiome analysis resource in 2020

Mitchell, A. L., Almeida, A., Beracochea, M., Boland, M., Burgin, J., Cochrane, G., Crusoe, M. R., Kale, V., Potter, S. C., Richardson, L. J., Sakharova, E., Scheremetjew, M., Korobeynikov, A., Shlemov, A., Kunyavskaya, O., Lapidus, A. & Finn, R. D., 8 Jan 2020, In : Nucleic Acids Research. 48, D1, p. D570-D578 9 p.

Research output

Open Access
2019

BiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs

Meleshko, D., Mohimani, H., Tracanna, V., Hajirasouliha, I., Medema, M. H., Korobeynikov, A. & Pevzner, P. A., 1 Aug 2019, In : Genome Research. 29, 8, p. 1352-1362

Research output

Open Access
5 Citations (Scopus)

MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities

Cao, L., Gurevich, A., Alexander, K. L., Naman, C. B., Leão, T., Glukhov, E., Luzzatto-Knaan, T., Vargas, F., Quinn, R., Bouslimani, A., Nothias, L. F., Singh, N. K., Sanders, J. G., Benitez, R. A. S., Thompson, L. R., Hamid, M. N., Morton, J. T., Mikheenko, A., Shlemov, A., Korobeynikov, A. & 8 others, Friedberg, I., Knight, R., Venkateswaran, K., Gerwick, W. H., Gerwick, L., Dorrestein, P. C., Pevzner, P. A. & Mohimani, H., 18 Dec 2019, In : Cell Systems. 9, 6, p. 600-608.e4 13 p.

Research output

4 Citations (Scopus)

PathRacer: Racing Profile HMM Paths on Assembly Graph

Shlemov, A. & Korobeynikov, A., 25 May 2019, 6th International Conference on Algorithms for Computational Biology. Vega-Rodríguez, M. A., Holmes, I. & Martín-Vide, C. (eds.). Springer Nature, p. 80-94 15 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11488 LNBI).

Research output

1 Citation (Scopus)

PathRacer: racing profile HMM paths on assembly graph

Shlemov, A. & Korobeynikov, A., 8 Nov 2019, In : BMC Bioinformatics. 20, Suppl 17, 1 p., О10.

Research output

Sequence Analysis

Пржибельский, А. Д., Коробейников, А. И. & Лапидус, А. Л., 2019, Reference Module in Life Sciences. Elsevier, p. 292-322 31 p. (Encyclopedia of Bioinformatics and Computational Biology; vol. 3).

Research output

1 Citation (Scopus)
2018

Autoprobiotics as an Approach for Restoration of Personalised Microbiota

Суворов, А. Н., Карасева, А. Б., Котылева, М. П., Кондратенко, Ю. Д., Лавренова, Н., Коробейников, А. И., Козырев, П. А., Крамская, Т. А., Леонтьева, Г., Кудрявцев, И. В., Guo, D., Лапидус, А. Л. & Ермоленко, Е. И., 12 Sep 2018, In : Frontiers in Microbiology. 9, 1869.

Research output

Open Access
4 Citations (Scopus)

Dereplication of microbial metabolites through database search of mass spectra

Mohimani, H., Гуревич, А. А., Шлемов, А. Ю., Михеенко, А. А., Коробейников, А. И., Cao, L., Щербин, Е., Nothias, L-F., Dorrestein, P. C. & Певзнер, П. А., 1 Dec 2018, In : Nature Communications. 9, 1, 12 p., 4035.

Research output

Open Access
37 Citations (Scopus)
27 Citations (Scopus)

Ketoreductase domain dysfunction expands chemodiversity: malyngamide biosynthesis in the cyanobacterium Okeania hirsuta

Moss, N., Leao, T., Rankin, M., McCullough, T. M., Qu, P., Коробейников, А. И., Smith, J. L., Gerwick, L. & Gerwick, W. H., Dec 2018, In : ACS Chemical Biology. 13, 12, p. 3385-3395 11 p.

Research output

Open Access
3 Citations (Scopus)

Singular Spectrum Analysis with R

Golyandina, N., Korobeynikov, A. & Zhigljavsky, A., 2018, Berlin Heidelberg: Springer Nature. 272 p. (Use R!)

Research output

2017

A Maldiisotopic Approach to Discover Natural Products: Cryptomaldamide, a Hybrid Tripeptide from the Marine Cyanobacterium Moorea producens

Kinnel, R. B., Esquenazi, E., Leao, T., Moss, N., Mevers, E., Pereira, A. R., Monroe, E. A., Korobeynikov, A., Murray, T. F., Sherman, D., Gerwick, L., Dorrestein, P. C. & Gerwick, W. H., 26 May 2017, In : Journal of Natural Products. 80, 5, p. 1514-1521 8 p.

Research output

8 Citations (Scopus)

Assessing the significance of peptide spectrum match scores

Abramova, A. & Korobeynikov, A., 1 Aug 2017, 17th International Workshop on Algorithms in Bioinformatics, WABI 2017. Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing, Vol. 88. 14. (Leibniz International Proceedings in Informatics, LIPIcs; vol. 88).

Research outputpeer-review

Comparative genomics uncovers the prolific and distinctive metabolic potential of the cyanobacterial genus Moorea

Leao, T., Castelão, G., Korobeynikov, A., Monroe, E. A., Podell, S., Glukhov, E., Allen, E. E., Gerwick, W. H. & Gerwick, L., 21 Mar 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 12, p. 3198-3203 6 p.

Research output

28 Citations (Scopus)

MetaSPAdes: A new versatile metagenomic assembler

Nurk, S., Мелешко, Д. А., Korobeynikov, A. & Pevzner, P. A., 1 May 2017, In : Genome Research. 27, 5, p. 824-834 11 p.

Research output

464 Citations (Scopus)
2016

A novel uncultured heterotrophic bacterial associate of the cyanobacterium Moorea producens JHB

Cummings, S. L., Barbé, D., Leao, T. F., Korobeynikov, A., Engene, N., Glukhov, E., Gerwick, W. H. & Gerwick, L., 2016, In : BMC Microbiology. 16, 1

Research output

6 Citations (Scopus)
134 Citations (Scopus)

Sequencing Rare Marine Actinomycete Genomes Reveals High Density of Unique Natural Product Biosynthetic Gene Clusters

Schorn, M. A., Alanjary, M. M., Aguinaldo, K., Korobeynikov, A., Podell, S., Patin, N. V., Lincecum, T., Jensen, P. R., Ziemert, N. & Moore, B. S., 2016, In : Microbiology.

Research output

23 Citations (Scopus)

The Phormidolide Biosynthetic Gene Cluster: A trans-AT PKS Pathway Encoding a Toxic Macrocyclic Polyketide

Bertin, M. J., Vulpanovici, A., Monroe, E. A., Korobeynikov, A., Sherman, D. H., Gerwick, L. & Gerwick, W. H., 2016, In : Chembiochem : a European journal of chemical biology. 17, 2, 10 p.

Research output

17 Citations (Scopus)
2015

Assembling short reads from jumping libraries with large insert sizes

Vasilinetc, I., Prjibelski, A. D., Gurevich, A., Korobeynikov, A. & Pevzner, P. A., 2015, In : Bioinformatics. 31, 20, p. 3262-3268

Research output

17 Citations (Scopus)

Combining Mass Spectrometric Metabolic Profiling with Genomic Analysis: A Powerful Approach for Discovering Natural Products from Cyanobacteria

Kleigrewe, K., Almaliti, J., Tian, I. Y., Kinnel, R. B., Korobeynikov, A., Monroe, E. A., Duggan, B. M., Di Marzo, V., Sherman, D. H., Dorrestein, P. C., Gerwick, L. & Gerwick, W. H., 2015, In : Journal of Natural Products. 78, 7, p. 1671-1682

Research output

80 Citations (Scopus)

Expanding the Described Metabolome of the Marine Cyanobacterium Moorea producens JHB through Orthogonal Natural Products Workflows

Boudreau, P. D., Monroe, E. A., Mehrotra, S., Desfor, S., Korobeynikov, A., Sherman, D. H., Murray, T. F., Gerwick, L., Dorrestein, P. C. & Gerwick, W. H., 2015, In : PLoS ONE. 10, 7

Research output

17 Citations (Scopus)

Spongosine production by a vibrio harveyi strain associated with the sponge tectitethya crypta

Bertin, M. J., Schwartz, S. L., Lee, J., Korobeynikov, A., Dorrestein, P. C., Gerwick, L. & Gerwick, W. H., 2015, In : Journal of Natural Products. 78, 3, p. 493-499

Research output

22 Citations (Scopus)

Characterization of Cyanobacterial Hydrocarbon Composition and Distribution of Biosynthetic Pathways

Coates, R. C., Podell, S., Korobeynikov, A., Lapidus, A., Pevzner, P., Sherman, D. H., Allen, E. E., Gerwick, L. & Gerwick, W. H., 2014, In : PLoS ONE. 9, 1, p. e85140

Research output

87 Citations (Scopus)

ExSPAnder: a universal repeat resolver for DNA fragment assembly

Prjibelski, A. D., Vasilinetc, I., Bankevich, A., Gurevich, A., Krivosheeva, T., Nurk, S., Pham, S., Korobeynikov, A., Lapidus, A. & Pevzner, P. A., 2014, In : Bioinformatics. 30, 12, p. I293-I301

Research output

59 Citations (Scopus)

Single cell genome analysis of an uncultured heterotrophic stramenopile

Roy, R. S., Price, D. C., Schliep, A., Cai, G., Korobeynikov, A., Yoon, H. S., Yang, E. C. & Bhattacharya, D., 2014, In : Scientific Reports. 4, p. Art.No.4780

Research output

34 Citations (Scopus)
2013

Assembling Genomes and mini-metagenomes from highly chimeric reads

Nurk, S., Bankevich, A., Antipov, D., Gurevich, A., Korobeynikov, A., Lapidus, A., Prjibelsky, A., Pyshkin, A., Sirotkin, A., Sirotkin, Y., Stepanauskas, R., McLean, J., Lasken, R., Clingenpeel, S. R., Woyke, T., Tesler, G., Alekseyev, M. A. & Pevzner, P. A., 2013, Research in Computational Molecular Biology - 17th Annual International Conference, RECOMB 2013, Beijing, China, April 7-10, 2013. Proceedings. Lecture Notes in Computer Science 7821. p. 158-170

Research output

247 Citations (Scopus)

Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products

Nurk, S., Bankevich, A., Antipov, D., Gurevich, A. A., Korobeynikov, A., Lapidus, A., Prjibelski, A. D., 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., 2013, In : Journal of Computational Biology. 20, 10, p. 714-737

Research output

523 Citations (Scopus)

BayesHammer: Bayesian clustering for error correction in single-cell sequencing

Nikolenko, S. I., Korobeynikov, A. I. & Alekseyev, M. A., 2013, In : BMC Genomics. 14, S7, p. 1-11

Research output

197 Citations (Scopus)
2012

Наглядная статистика. Используем R!

Шипунов, А. Б., Балдин, E. М., Волкова, П. А., Коробейников, А. И., Назарова, С. А., Петров, С. В. & Суфиянов, В. Г., 2012, ДМК Пресс. 298 p.

Research output

Open Access