SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing. - Anton Bankevich; Sergey Nurk; Dmitry Antipov; Alexey A. Gurevich; Mikhail Dvorkin; Alexander S. Kulikov; Valery M. Lesin; Sergey I. Nikolenko; Son K. Pham; Andrey D. Prjibelski; Alex Pyshkin; Alexander Sirotkin 001; et al. (J. Comput. Biol., 2012)

Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads. - Sergey Nurk; Anton Bankevich; Dmitry Antipov; Alexey A. Gurevich; Anton I. Korobeynikov; Alla L. Lapidus; Andrey D. Prjibelsky; Alex Pyshkin; Alexander Sirotkin 001; Yakov Sirotkin; Ramunas Stepanauskas; Jeffrey S. McLean; et al. (RECOMB, 2013)

Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products. - Sergey Nurk; Anton Bankevich; Dmitry Antipov; Alexey A. Gurevich; Anton I. Korobeynikov; Alla L. Lapidus; Andrey D. Prjibelski; Alex Pyshkin; Alexander Sirotkin 001; Yakov Sirotkin; Ramunas Stepanauskas; Scott R. Clingenpeel; et al. (J. Comput. Biol., 2013)

ExSPAnder: a universal repeat resolver for DNA fragment assembly. - Andrey D. Prjibelski; Irina Vasilinetc; Anton Bankevich; Alexey A. Gurevich; Tatiana Krivosheeva; Sergey Nurk; Son K. Pham; Anton I. Korobeynikov; Alla L. Lapidus; Pavel A. Pevzner (Bioinform., 2014)

Assembling short reads from jumping libraries with large insert sizes. - Irina Vasilinetc; Andrey D. Prjibelski; Alexey A. Gurevich; Anton I. Korobeynikov; Pavel A. Pevzner (Bioinform., 2015)

rnaQUAST: a quality assessment tool for de novo transcriptome assemblies. - Elena Bushmanova; Dmitry Antipov; Alla L. Lapidus; Vladimir Suvorov; Andrey D. Prjibelski (Bioinform., 2016)

Icarus: visualizer for de novo assembly evaluation. - Alla Mikheenko; Gleb Valin; Andrey D. Prjibelski; Vladislav Saveliev; Alexey A. Gurevich (Bioinform., 2016)

Versatile genome assembly evaluation with QUAST-LG. - Alla Mikheenko; Andrey D. Prjibelski; Vladislav Saveliev; Dmitry Antipov; Alexey A. Gurevich (Bioinform., 2018)

De Novo Peptide Sequencing Reveals a Vast Cyclopeptidome in Human Gut and Other Environments. - Bahar Behsaz; Hosein Mohimani; Alexey A. Gurevich; Andrey D. Prjibelski; Mark F. Fisher; Larry Smarr; Pieter C. Dorrestein; Joshua S. Mylne; Pavel A. Pevzner (RECOMB, 2019)

SGTK: a toolkit for visualization and assessment of scaffold graphs. - Olga Kunyavskaya; Andrey D. Prjibelski (Bioinform., 2019)

Sequence Analysis. - Andrey D. Prjibelski; Anton I. Korobeynikov; Alla L. Lapidus (Encyclopedia of Bioinformatics and Computational Biology (3), 2019)

Extending rnaSPAdes functionality for hybrid transcriptome assembly. - Andrey D. Prjibelski; Giuseppe D. Puglia; Dmitry Antipov; Elena Bushmanova; Daniela Giordano; Alla Mikheenko; Domenico Vitale; Alla L. Lapidus (BMC Bioinform., 2020)