Center for Algorithmic Biotechnology

metaFlye paper is out in Nature Methods!

metaFlye is a new metagenomic-specific version of the Flye long-read genome assembler (ONT and PacBio sequencing).

The paper about the assembler and its application to real and simulated metagenomic datasets is out in Nature Methods (see SPbU press releases in Russian and English). The research project is a result of a collaboration of 11 Russian and American scientists which included two members of our laboratory, Alexey Gurevich and Mike Rayko. The assembler is developed by a UCSD postdoc Mikhael Kolmogorov, you can download and try it here. The research supervisor of the project is Pavel Pevzner, Professor at UCSD and Chief Advisor of the Center for Algorithmic Biotechnology.

The Lab participation in the project was supported by RSF # 19-16-00049.

First telomere-to-telomere human genome assembly

T2T Consortium presented first complete human genome assembly on T2T/HPRC Open Science Days! Polished version of the assembly can be found on github. This is exciting breakthrough for all bioinformatics community!

We are proud that members of our laboratory take part in this important initiative, especially, Alla Mikheenko and Alexey Gurevich, who developed TandemTools in collaboration with UCSD. TandemTools were used to evaluate the quality of assemblies in the most difficult repetitive regions (such as centromeres).

BiATA brought up together over 400 scientists this year!

The fourth international conference “Bioinformatics: from Algorithms to Applications” (BiATA2020) moved online this year and was accompanied by a 2-day workshop on metagenomic data analysis. All pre-recorded talks are available online and can be found on BiATA2020 website.

We thank all speakers for presenting their great work and looking forward to the next year!

And congratulations on this fantastic event to its main organizers from our laboratory Alla Lapidus and Anton Korobeynikov, who made it happen!

Meet our new product coronaSPAdes!

We are delighted to present novel SPAdes assembler mode — coronaSPAdes, created by our researchers Anton Korobeynikov and Dmitry Meleshko. CoronaSPAdes allows to assemble full-length coronaviridae genomes from the transcriptomic and metatranscriptomic data. For more details visit coronaSPAdes official page.

We hope that coronaSPAdes will accelerate the ongoing coronavirus research!

See more news on this topic in Russian and in English.

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