Anton Bankevich

Assistant Professor of Computer Science and Engineering

aqb6554@psu.edu

Bio & Links
Publications

Most Recent Publications

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

Anton Bankevich, Andrey V. Bzikadze, Mikhail Kolmogorov, Dmitry Antipov, Pavel A. Pevzner, 2022, Nature Biotechnology on p. 1075-1081

ORFograph: search for novel insecticidal protein genes in genomic and metagenomic assembly graphs

Tatiana Dvorkina, Anton Bankevich, Alexei Sorokin, Fan Yang, Boahemaa Adu-Oppong, Ryan Williams, Keith Turner, Pavel A. Pevzner, 2021, Microbiome

Mosaicflye: resolving long mosaic repeats using long reads

Anton Bankevich, Pavel Pevzner, 2020, on p. 226-228

Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads

Jon G. Sanders, Sergey Nurk, Rodolfo A. Salido, Jeremiah Minich, Zhenjiang Z. Xu, Qiyun Zhu, Cameron Martino, Marcus Fedarko, Timothy D. Arthur, Feng Chen, Brigid S. Boland, Greg C. Humphrey, Caitriona Brennan, Karenina Sanders, James Gaffney, Kristen Jepsen, Mahdieh Khosroheidari, Cliff Green, Marlon Liyanage, Jason W. Dang, Vanessa V. Phelan, Robert A. Quinn, Anton Bankevich, John T. Chang, Tariq M. Rana, Douglas J. Conrad, William J. Sandborn, Larry Smarr, Pieter C. Dorrestein, Pavel A. Pevzner, Rob Knight, 2019, Genome Biology on p. 1-14

CloudSPAdes: Assembly of synthetic long reads using de Bruijn graphs

Ivan Tolstoganov, Anton Bankevich, Zhoutao Chen, Pavel A. Pevzner, 2019, Bioinformatics on p. i61-i70

Joint Analysis of Long and Short Reads Enables Accurate Estimates of Microbiome Complexity

Anton Bankevich, Pavel A. Pevzner, 2018, Cell Systems on p. 192-200.e3

Long Reads Enable Accurate Estimates of Complexity of Metagenomes

Anton Bankevich, Pavel Pevzner, 2018, on p. 1-20

Comparison of carnivore, omnivore, and herbivore mammalian genomes with a new leopard assembly

Soonok Kim, Yun Sung Cho, Hak Min Kim, Oksung Chung, Hyunho Kim, Sungwoong Jho, Hong Seomun, Jeongho Kim, Woo Young Bang, Changmu Kim, Junghwa An, Chang Hwan Bae, Youngjune Bhak, Sungwon Jeon, Hyejun Yoon, Yumi Kim, Je Hoon Jun, Hye Jin Lee, Suan Cho, Olga Uphyrkina, Aleksey Kostyria, John Goodrich, Dale Miquelle, Melody Roelke, John Lewis, Andrey Yurchenko, Anton Bankevich, Juok Cho, Semin Lee, Jeremy S. Edwards, Jessica A. Weber, Jo Cook, Sangsoo Kim, Hang Lee, Andrea Manica, Ilbeum Lee, Stephen J. O'Brien, Jong Bhak, Joo Hong Yeo, 2016, Genome Biology

TruSPAdes: Barcode assembly of TruSeq synthetic long reads

Anton Bankevich, Pavel A. Pevzner, 2016, Nature Methods on p. 248-250

DipSPAdes: Assembler for Highly Polymorphic Diploid Genomes

Yana Safonova, Anton Bankevich, Pavel A. Pevzner, 2015, Journal of Computational Biology on p. 528-545

Most-Cited Papers

ExSPAnder: A universal repeat resolver for DNA fragment assembly

Andrey D. Prjibelski, Irina Vasilinetc, Anton Bankevich, Alexey Gurevich, Tatiana Krivosheeva, Sergey Nurk, Son Pham, Anton Korobeynikov, Alla Lapidus, Pavel A. Pevzner, 2014, Bioinformatics on p. I293-I301