Paul Medvedev

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Rayan ChikhiInstitut Pasteur & CNRSVerified email at ens-cachan.org
Kateryna MakovaProfessor of Biology, Penn State UniversityVerified email at psu.edu
Michael BrudnoProfessor of Computer Science, University of Toronto; Chief Data Scientist, UHNVerified email at cs.toronto.edu
Kristoffer SahlinAssistant Professor at Department of Mathematics, Stockholm UniversityVerified email at math.su.se
Martin MilaničUniversity of Primorska, Koper, SloveniaVerified email at upr.si
Robert S HarrisAssistant Research Professor, Pennsylvania State UniversityVerified email at bx.psu.edu
Chen SunGoogleVerified email at cse.psu.edu
Amatur RahmanPhD Student, Department of Computer Science and Engineering, The Pennsylvania State UniversityVerified email at psu.edu
Pavel PevznerProfessor of Computer Science, University of California at San DiegoVerified email at eng.ucsd.edu
Ilia MinkinJohns Hopkins University: HomeVerified email at psu.edu
Alexandru I. TomescuDepartment of Computer Science, University of HelsinkiVerified email at helsinki.fi
Son PhamBioTuringVerified email at bioturing.com
Rahulsimham vegesnaNCIVerified email at nih.gov
Oliver A. RyderDirector of Conservation Genetics, San Diego Zoo Wildlife Alliance. Prof. of EBE U.C. San DiegoVerified email at sdzwa.org
Pierre PeterlongoInriaVerified email at inria.fr
David KoslickiComputer Science and Engineering, Biology, Huck Institutes of the Life Sciences, Penn StateVerified email at psu.edu
Antonio BlancaAssistant Professor, CSE Department, Penn StateVerified email at cse.psu.edu
Joan BoyarProfessor of Computer Science, University of Southern DenmarkVerified email at imada.sdu.dk
Jens StoyeBielefeld University, GermanyVerified email at uni-bielefeld.de
Yoann DUFRESNEPhD, Institut Pasteur, ParisVerified email at pasteur.fr

Paul Medvedev

Penn State

Verified email at cse.psu.edu - Homepage

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Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
Towards complete and error-free genome assemblies of all vertebrate species A Rhie, SA McCarthy, O Fedrigo, J Damas, G Formenti, S Koren, ... Nature 592 (7856), 737-746, 2021	895	2021
Informed and automated k-mer size selection for genome assembly R Chikhi, P Medvedev Bioinformatics 30 (1), 31-37, 2014	716	2014
Computational methods for discovering structural variation with next-generation sequencing P Medvedev, M Stanciu, M Brudno Nature methods 6, S13-S20, 2009	670	2009
Computational pan-genomics: status, promises and challenges Computational Pan-Genomics Consortium Briefings in Bioinformatics, bbw089, 2016	297	2016
Computability of models for sequence assembly P Medvedev, K Georgiou, G Myers, M Brudno International Workshop on Algorithms in Bioinformatics, 289-301, 2007	231	2007
Detecting copy number variation with mated short reads P Medvedev, M Fiume, M Dzamba, T Smith, M Brudno Genome research 20 (11), 1613-1622, 2010	213	2010
Compacting de Bruijn graphs from sequencing data quickly and in low memory R Chikhi, A Limasset, P Medvedev Bioinformatics 32 (ISMB Proceedings), i201-i208, 2016	198	2016
On the representation of de Bruijn graphs R Chikhi, A Limasset, S Jackman, JT Simpson, P Medvedev Journal of Computational Biology 22 (Journal version of RECOMB paper), 336-352, 2015	181	2015
Error correction of high-throughput sequencing datasets with non-uniform coverage P Medvedev, E Scott, B Kakaradov, P Pevzner Bioinformatics 27 (ISMB Proceedings), i137-i141, 2011	166	2011
Maximum likelihood genome assembly P Medvedev, M Brudno Journal of computational Biology 16 (Journal version of RECOMB paper), 1101-1116, 2009	153*	2009
Complexity of independent set reconfigurability problems M Kamiński, P Medvedev, M Milanič Theoretical computer science 439, 9-15, 2012	151	2012
A self-coordinating approach to distributed fair queueing in ad hoc wireless networks H Luo, P Medvedev, J Cheng, S Lu INFOCOM 2001. Twentieth Annual Joint Conference of the IEEE Computer and …, 2001	146	2001
Paired de bruijn graphs: a novel approach for incorporating mate pair information into genome assemblers P Medvedev, S Pham, M Chaisson, G Tesler, P Pevzner Journal of Computational Biology 18 (Journal version of RECOMB paper), 1625-1634, 2011	112	2011
Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis K Sahlin, P Medvedev Nature communications 12 (1), 1-13, 2021	105	2021
A time-and cost-effective strategy to sequence mammalian Y Chromosomes: an application to the de novo assembly of gorilla Y M Tomaszkiewicz, S Rangavittal, M Cechova, RC Sanchez, ... Genome research 26 (4), 530-540, 2016	104	2016
Y and W chromosome assemblies: approaches and discoveries M Tomaszkiewicz, P Medvedev, KD Makova Trends in genetics 33 (4), 266-282, 2017	100	2017
Accurate typing of short tandem repeats from genome-wide sequencing data and its applications KD Fungtammasan, Arkarachai and Ananda, Guruprasad and Hile, Suzanne E and ... Genome Research 25, 736--749, 2015	98	2015
TwoPaCo: an efficient algorithm to build the compacted de Bruijn graph from many complete genomes I Minkin, S Pham, P Medvedev Bioinformatics 33 (24), 4024-4032, 2017	90	2017
Shortest paths between shortest paths M Kamiński, P Medvedev, M Milanič Theoretical computer science 412 (39), 5205-5210, 2011	87*	2011
Data structures based on k-mers for querying large collections of sequencing data sets C Marchet, C Boucher, SJ Puglisi, P Medvedev, M Salson, R Chikhi Genome Research 31 (1), 1-12, 2021	68	2021

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