Mikhail Kolmogorov

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Pavel PevznerProfessor of Computer Science, University of California at San DiegoVerified email at eng.ucsd.edu
Yu LinSchool of Computing, Australian National UniversityVerified email at anu.edu.au
Son PhamBioTuringVerified email at bioturing.com
Benedict PatenAssociate Professor; Associate Director, UC Santa Cruz Genomics Institute, University of CaliforniaVerified email at ucsc.edu
Mikhail RaikoUCSDVerified email at ucsd.edu
Brian RaneyUniversity of California, Santa Cruz, UC Santa Cruz Genomics Institute, UCSC Genome BrowserVerified email at ucsc.edu
Mark ChaissonUniversity of Southern CaliforniaVerified email at usc.edu
Max W ShenPhD Candidate, Massachusetts Institute of TechnologyVerified email at mit.edu
Ilia MinkinThe Pennsylvania State UniversityVerified email at psu.edu
Anand D. PatelBioinformatics and Systems Biology, University of California San DiegoVerified email at ucsd.edu
Nikolay Vyahhi-Verified email at bioinf.spbau.ru
Ami BhattAssociate Professor of Medicine and Genetics, Stanford UniversityVerified email at stanford.edu
Serafim BatzoglouSeerVerified email at seer.bio
Thomas KeaneResearch and Service Group LeaderVerified email at ebi.ac.uk
Duncan T OdomUniversity of Heidelberg & German Cancer Research Center/DKFZVerified email at dkfz-heidelberg.de
David ThybertGSKVerified email at gsk.com
Paul FlicekUniversity of Cambridge, Wellcome Sanger Institute, European Bioinformatics InstituteVerified email at cam.ac.uk
Gregory TimpProfessor Electrical Engineering & Biological Studies, University of Notre DameVerified email at nd.edu
Zhuxin DongUniversity of Notre DameVerified email at nd.edu
Alla MikheenkoResearch Fellow, University College of LondonVerified email at ucl.ac.uk

Mikhail Kolmogorov

Stadtman Investigator, National Cancer Institute, NIH

Verified email at nih.gov - Homepage

Bioinformatics Genomics


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
Assembly of long, error-prone reads using repeat graphs M Kolmogorov, J Yuan, Y Lin, PA Pevzner Nature biotechnology 37 (5), 540-546, 2019	1775	2019
The complete sequence of a human genome S Nurk, S Koren, A Rhie, M Rautiainen, AV Bzikadze, A Mikheenko, ... Science 376 (6588), 44-53, 2022	792	2022
metaFlye: scalable long-read metagenome assembly using repeat graphs M Kolmogorov, DM Bickhart, B Behsaz, A Gurevich, M Rayko, SB Shin, ... Nature Methods, 1-8, 2020	272	2020
Assembly of long error-prone reads using de Bruijn graphs Y Lin, J Yuan, M Kolmogorov, MW Shen, M Chaisson, PA Pevzner Proceedings of the National Academy of Sciences 113 (52), E8396-E8405, 2016	217	2016
Ragout—a reference-assisted assembly tool for bacterial genomes M Kolmogorov, B Raney, B Paten, S Pham Bioinformatics 30 (12), i302-i309, 2014	163	2014
Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci J Lilue, AG Doran, IT Fiddes, M Abrudan, J Armstrong, R Bennett, ... Nature Genetics, 1, 2018	147	2018
Sibelia: a scalable and comprehensive synteny block generation tool for closely related microbial genomes I Minkin, A Patel, M Kolmogorov, N Vyahhi, S Pham Algorithms in Bioinformatics: 13th International Workshop, WABI 2013, Sophia …, 2013	112	2013
High-quality genome sequences of uncultured microbes by assembly of read clouds A Bishara, EL Moss, M Kolmogorov, AE Parada, Z Weng, A Sidow, ... Nature biotechnology 36 (11), 1067-1075, 2018	92	2018
Chromosome assembly of large and complex genomes using multiple references M Kolmogorov, J Armstrong, BJ Raney, I Streeter, M Dunn, F Yang, ... Genome research 28 (11), 1720-1732, 2018	83	2018
Critical assessment of metagenome interpretation: the second round of challenges F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ... Nature methods 19 (4), 429-440, 2022	82	2022
Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes D Thybert, M Roller, FCP Navarro, I Fiddes, I Streeter, C Feig, ... Genome research 28 (4), 448-459, 2018	74	2018
Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads K Shafin, T Pesout, PC Chang, M Nattestad, A Kolesnikov, S Goel, G Baid, ... Nature methods 18 (11), 1322-1332, 2021	73	2021
Single-molecule protein identification by sub-nanopore sensors M Kolmogorov, E Kennedy, Z Dong, G Timp, PA Pevzner PLoS computational biology 13 (5), e1005356, 2017	61	2017
Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities DM Bickhart, M Kolmogorov, E Tseng, DM Portik, A Korobeynikov, ... Nature biotechnology 40 (5), 711-719, 2022	58*	2022
Semi-automated assembly of high-quality diploid human reference genomes ED Jarvis, G Formenti, A Rhie, A Guarracino, C Yang, J Wood, A Tracey, ... Nature, 1-13, 2022	31*	2022
Multiplex de Bruijn graphs enable genome assembly from long, high-fidelity reads A Bankevich, AV Bzikadze, M Kolmogorov, D Antipov, PA Pevzner Nature biotechnology 40 (7), 1075-1081, 2022	27*	2022
Assembly Graph Browser: interactive visualization of assembly graphs A Mikheenko, M Kolmogorov Bioinformatics 35 (18), 3476-3478, 2019	13	2019
SpectroGene: a tool for proteogenomic annotations using top-down spectra M Kolmogorov, X Liu, PA Pevzner Journal of proteome research 15 (1), 144-151, 2016	12	2016
Synteny paths for assembly graphs comparison E Polevikov, M Kolmogorov 19th International Workshop on Algorithms in Bioinformatics (WABI 2019), 2019	5	2019
viralFlye: assembling viruses and identifying their hosts from long-read metagenomics data D Antipov, M Rayko, M Kolmogorov, PA Pevzner Genome Biology 23 (1), 1-21, 2022	2	2022

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