Son Pham
Son Pham
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SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing
A Bankevich, S Nurk, D Antipov, AA Gurevich, M Dvorkin, AS Kulikov, ...
Journal of computational biology 19 (5), 455-477, 2012
Differential responses to lithium in hyperexcitable neurons from patients with bipolar disorder
J Mertens, QW Wang, Y Kim, DX Yu, S Pham, B Yang, Y Zheng, ...
Nature 527 (7576), 95-99, 2015
Using single nuclei for RNA-seq to capture the transcriptome of postmortem neurons
SR Krishnaswami, RV Grindberg, M Novotny, P Venepally, B Lacar, ...
Nature protocols 11 (3), 499-524, 2016
Ragout—a reference-assisted assembly tool for bacterial genomes
M Kolmogorov, B Raney, B Paten, S Pham
Bioinformatics 30 (12), i302-i309, 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 50 (11), 1574-1583, 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
International Workshop on Algorithms in Bioinformatics, 215-229, 2013
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 (11), 1625-1634, 2011
ExSPAnder: a universal repeat resolver for DNA fragment assembly
AD Prjibelski, I Vasilinetc, A Bankevich, A Gurevich, T Krivosheeva, ...
Bioinformatics 30 (12), i293-i301, 2014
DRIMM-Synteny: decomposing genomes into evolutionary conserved segments
SK Pham, PA Pevzner
Bioinformatics 26 (20), 2509-2516, 2010
Mitochondrial aging defects emerge in directly reprogrammed human neurons due to their metabolic profile
Y Kim, X Zheng, Z Ansari, MC Bunnell, JR Herdy, L Traxler, H Lee, ...
Cell reports 23 (9), 2550-2558, 2018
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
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
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
The Pharmacogenomics of Bipolar Disorder study (PGBD): identification of genes for lithium response in a prospective sample
KJ Oedegaard, M Alda, A Anand, OA Andreassen, Y Balaraman, ...
BMC psychiatry 16 (1), 1-15, 2016
Pagerank based clustering of hypertext document collections
K Avrachenkov, V Dobrynin, D Nemirovsky, SK Pham, E Smirnova
Proceedings of the 31st annual international ACM SIGIR conference on …, 2008
Cerulean: a hybrid assembly using high throughput short and long reads
V Deshpande, EDK Fung, S Pham, V Bafna
International workshop on algorithms in bioinformatics, 349-363, 2013
Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range …
Z Chen, L Pham, TC Wu, G Mo, Y Xia, PL Chang, D Porter, T Phan, H Che, ...
Genome research 30 (6), 898-909, 2020
A singular perturbation approach for choosing the PageRank damping factor
K Avrachenkov, N Litvak, KS Pham
Internet Mathematics 5 (1-2), 47-69, 2008
Distribution of PageRank mass among principle components of the web
K Avrachenkov, N Litvak, K Pham
Algorithms and Models for the Web-Graph, 16-28, 2007
Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling
ES Rice, S Kohno, JS John, S Pham, J Howard, LF Lareau, BL O'Connell, ...
Genome research 27 (5), 686-696, 2017
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