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)

Pathset Graphs: A Novel Approach for Comprehensive Utilization of Paired Reads in Genome Assembly. - Son K. Pham; Dmitry Antipov; Alexander Sirotkin 001; Glenn Tesler; Pavel A. Pevzner; Max A. Alekseyev (J. Comput. Biol., 2013)

plasmidSPAdes: assembling plasmids from whole genome sequencing data. - Dmitry Antipov; Nolan Hartwick; Max W. Shen; Mikhail Raiko; Alla L. Lapidus; Pavel A. Pevzner (Bioinform., 2016)

hybridSPAdes: an algorithm for hybrid assembly of short and long reads. - Dmitry Antipov; Anton I. Korobeynikov; Jeffrey S. McLean; Pavel A. Pevzner (Bioinform., 2016)

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

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

Metaviral SPAdes: assembly of viruses from metagenomic data. - Dmitry Antipov; Mikhail Raiko; Alla L. Lapidus; Pavel A. Pevzner (Bioinform., 2020)

SPAligner: alignment of long diverged molecular sequences to assembly graphs. - Tatiana Dvorkina; Dmitry Antipov; Anton I. Korobeynikov; Sergey Nurk (BMC Bioinform., 2020)

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)