1. 2022
  2. viralFlye: assembling viruses and identifying their hosts from long-read metagenomics data

    Antipov, D., Rayko, M., Kolmogorov, M. & Pevzner, P. A., Dec 2022, In: Genome Biology. 23, 1, 57.

    Research output: Contribution to journalArticlepeer-review

  3. Varidnaviruses in the Human Gut: A Major Expansion of the Order Vinavirales

    Yutin, N., Rayko, M., Antipov, D., Mutz, P., Wolf, Y. I., Krupovic, M. & Koonin, E. V., 23 Aug 2022, In: Viruses. 14, 9, 1842.

    Research output: Contribution to journalArticlepeer-review

  4. Multiplex de Bruijn graphs enable genome assembly from long, high-fidelity reads

    Bankevich, A., Bzikadze, A. V., Kolmogorov, M., Antipov, D. & Pevzner, P. A., Jul 2022, In: Nature Biotechnology. 40, 7, p. 1075-1081 7 p.

    Research output: Contribution to journalArticlepeer-review

  5. Critical Assessment of Metagenome Interpretation: the second round of challenges

    Meyer, F., Fritz, A., Deng, Z. L., Koslicki, D., Lesker, T. R., Gurevich, A., Robertson, G., Alser, M., Antipov, D., Beghini, F., Bertrand, D., Brito, J. J., Brown, C. T., Buchmann, J., Buluç, A., Chen, B., Chikhi, R., Clausen, P. T. L. C., Cristian, A., Dabrowski, P. W. & 83 others, Darling, A. E., Egan, R., Eskin, E., Georganas, E., Goltsman, E., Gray, M. A., Hansen, L. H., Hofmeyr, S., Huang, P., Irber, L., Jia, H., Jørgensen, T. S., Kieser, S. D., Klemetsen, T., Kola, A., Kolmogorov, M., Korobeynikov, A., Kwan, J., LaPierre, N., Lemaitre, C., Li, C., Limasset, A., Malcher-Miranda, F., Mangul, S., Marcelino, V. R., Marchet, C., Marijon, P., Meleshko, D., Mende, D. R., Milanese, A., Nagarajan, N., Nissen, J., Nurk, S., Oliker, L., Paoli, L., Peterlongo, P., Piro, V. C., Porter, J. S., Rasmussen, S., Rees, E. R., Reinert, K., Renard, B., Robertsen, E. M., Rosen, G. L., Ruscheweyh, H. J., Sarwal, V., Segata, N., Seiler, E., Shi, L., Sun, F., Sunagawa, S., Sørensen, S. J., Thomas, A., Tong, C., Trajkovski, M., Tremblay, J., Uritskiy, G., Vicedomini, R., Wang, Z., Wang, Z., Wang, Z., Warren, A., Willassen, N. P., Yelick, K., You, R., Zeller, G., Zhao, Z., Zhu, S., Zhu, J., Garrido-Oter, R., Gastmeier, P., Hacquard, S., Häußler, S., Khaledi, A., Maechler, F., Mesny, F., Radutoiu, S., Schulze-Lefert, P., Smit, N., Strowig, T., Bremges, A., Sczyrba, A. & McHardy, A. C., 8 Apr 2022, In: Nature Methods. 19, 4, p. 429-440 12 p.

    Research output: Contribution to journalArticlepeer-review

  6. 2021
  7. Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features

    Yutin, N., Benler, S., Shmakov, S. A., Wolf, Y. I., Tolstoy, I., Rayko, M., Antipov, D., Pevzner, P. A. & Koonin, E. V., Dec 2021, In: Nature Communications. 12, 1, 11 p., 1044.

    Research output: Contribution to journalArticlepeer-review

  8. Thousands of previously unknown phages discovered in whole-community human gut metagenomes

    Benler, S., Yutin, N., Antipov, D., Rayko, M., Shmakov, S., Gussow, A. B., Pevzner, P. & Koonin, E. V., Dec 2021, In: Microbiome. 9, 1, 17 p., 78.

    Research output: Contribution to journalArticlepeer-review

  9. 2020
  10. Black cat in a dark room: search for new viruses in metagenomes

    Яковлева, Ю. А., Забелкин, А., Сказина, М. А., Калтович, А., Антипов, Д. Ю. & Райко, М. П., 17 Dec 2020, In: BMC Bioinformatics. 21, Suppl.20

    Research output: Contribution to journalMeeting Abstractpeer-review

  11. Extending rnaSPAdes functionality for hybrid transcriptome assembly

    Prjibelski, A. D., Puglia, G. D., Antipov, D., Bushmanova, E., Giordano, D., Mikheenko, A., Vitale, D. & Lapidus, A., 24 Jul 2020, In: BMC Bioinformatics. 21, Suppl 12, p. 302 9 p., 302.

    Research output: Contribution to journalArticlepeer-review

  12. SPAligner: Alignment of long diverged molecular sequences to assembly graphs

    Dvorkina, T., Antipov, D., Korobeynikov, A. & Nurk, S., 24 Jul 2020, In: BMC Bioinformatics. 21, Suppl 12, 306.

    Research output: Contribution to journalArticlepeer-review

  13. METAVIRALSPADES: assembly of viruses from metagenomic data

    Antipov, D., Raiko, M., Lapidus, A. & Pevzner, P. A., 15 Jul 2020, In: Bioinformatics. 36, 14, p. 4126-4129 4 p.

    Research output: Contribution to journalArticlepeer-review

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