Paul Medvedev
Paul Medvedev
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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
Informed and automated k-mer size selection for genome assembly
R Chikhi, P Medvedev
Bioinformatics 30 (1), 31-37, 2014
Computational methods for discovering structural variation with next-generation sequencing
P Medvedev, M Stanciu, M Brudno
Nature methods 6, S13-S20, 2009
Computational pan-genomics: status, promises and challenges
Computational Pan-Genomics Consortium
Briefings in Bioinformatics, bbw089, 2016
Computability of models for sequence assembly
P Medvedev, K Georgiou, G Myers, M Brudno
International Workshop on Algorithms in Bioinformatics, 289-301, 2007
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
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
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
Complexity of independent set reconfigurability problems
M Kamiński, P Medvedev, M Milanič
Theoretical computer science 439, 9-15, 2012
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
Maximum likelihood genome assembly
P Medvedev, M Brudno
Journal of computational Biology 16 (Journal version of RECOMB paper), 1101-1116, 2009
The complete sequence of a human Y chromosome
A Rhie, S Nurk, M Cechova, SJ Hoyt, DJ Taylor, N Altemose, PW Hook, ...
Nature 621 (7978), 344-354, 2023
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
Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis
K Sahlin, P Medvedev
Nature communications 12 (1), 1-13, 2021
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
Y and W chromosome assemblies: approaches and discoveries
M Tomaszkiewicz, P Medvedev, KD Makova
Trends in genetics 33 (4), 266-282, 2017
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
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
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
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
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