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Sergei L Kosakovsky Pond
Sergei L Kosakovsky Pond
Professor of Biology, Institute for Genomics and Evolutionary Medicine, Temple University
Bestätigte E-Mail-Adresse bei temple.edu - Startseite
Titel
Zitiert von
Zitiert von
Jahr
HyPhy: hypothesis testing using phylogenies
SLK Pond, SDW Frost, SV Muse
Bioinformatics 21 (5), 676-679, 2005
33292005
Not so different after all: a comparison of methods for detecting amino acid sites under selection
SL Kosakovsky Pond, SDW Frost
Molecular biology and evolution 22 (5), 1208-1222, 2005
19432005
Detecting individual sites subject to episodic diversifying selection
B Murrell, JO Wertheim, S Moola, T Weighill, K Scheffler, ...
PLoS genetics 8 (7), e1002764, 2012
17162012
Genomics and epidemiology of the P. 1 SARS-CoV-2 lineage in Manaus, Brazil
NR Faria, TA Mellan, C Whittaker, IM Claro, DS Candido, S Mishra, ...
Science 372 (6544), 815-821, 2021
17082021
Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa
R Viana, S Moyo, DG Amoako, H Tegally, C Scheepers, CL Althaus, ...
Nature 603 (7902), 679-686, 2022
16442022
Detection of a SARS-CoV-2 variant of concern in South Africa
H Tegally, E Wilkinson, M Giovanetti, A Iranzadeh, V Fonseca, ...
Nature 592 (7854), 438-443, 2021
16232021
Datamonkey: rapid detection of selective pressure on individual sites of codon alignments
SLK Pond, SDW Frost
Bioinformatics 21 (10), 2531-2533, 2005
15192005
Not so different after all: a comparison of methods for detecting amino acid sites under selection
SLK Pond, SD Frost
Mol Biol Evol 22 (5), 1208-1222, 2005
14062005
Datamonkey 2010: a suite of phylogenetic analysis tools for evolutionary biology
W Delport, AFY Poon, SDW Frost, SL Kosakovsky Pond
Bioinformatics 26 (19), 2455-2457, 2010
13402010
FUBAR: a fast, unconstrained bayesian approximation for inferring selection
B Murrell, S Moola, A Mabona, T Weighill, D Sheward, ...
Molecular biology and evolution 30 (5), 1196-1205, 2013
12642013
Emergence and rapid spread of a new severe acute respiratory syndrome-related coronavirus 2 (SARS-CoV-2) lineage with multiple spike mutations in South Africa
H Tegally, E Wilkinson, M Giovanetti, A Iranzadeh, V Fonseca, ...
medrxiv, 2020.12. 21.20248640, 2020
12282020
The biological and clinical significance of emerging SARS-CoV-2 variants
K Tao, PL Tzou, J Nouhin, RK Gupta, T de Oliveira, SL Kosakovsky Pond, ...
Nature Reviews Genetics 22 (12), 757-773, 2021
11082021
Automated phylogenetic detection of recombination using a genetic algorithm
SL Kosakovsky Pond, D Posada, MB Gravenor, CH Woelk, SDW Frost
Molecular biology and evolution 23 (10), 1891-1901, 2006
10242006
GARD: a genetic algorithm for recombination detection
SL Kosakovsky Pond, D Posada, MB Gravenor, CH Woelk, SDW Frost
Bioinformatics 22 (24), 3096-3098, 2006
8682006
Datamonkey 2.0: a modern web application for characterizing selective and other evolutionary processes
S Weaver, SD Shank, SJ Spielman, M Li, SV Muse, SL Kosakovsky Pond
Molecular biology and evolution 35 (3), 773-777, 2018
8392018
Less is more: an adaptive branch-site random effects model for efficient detection of episodic diversifying selection
MD Smith, JO Wertheim, S Weaver, B Murrell, K Scheffler, ...
Molecular biology and evolution 32 (5), 1342-1353, 2015
7252015
Persistent HIV-1 replication maintains the tissue reservoir during therapy
R Lorenzo-Redondo, HR Fryer, T Bedford, EY Kim, J Archer, ...
Nature 530 (7588), 51-56, 2016
7102016
RELAX: detecting relaxed selection in a phylogenetic framework
JO Wertheim, B Murrell, MD Smith, SL Kosakovsky Pond, K Scheffler
Molecular biology and evolution 32 (3), 820-832, 2015
6462015
Emergence of SARS-CoV-2 omicron lineages BA. 4 and BA. 5 in South Africa
H Tegally, M Moir, J Everatt, M Giovanetti, C Scheepers, E Wilkinson, ...
Nature medicine 28 (9), 1785-1790, 2022
6252022
Gene-wide identification of episodic selection
B Murrell, S Weaver, MD Smith, JO Wertheim, S Murrell, A Aylward, ...
Molecular biology and evolution 32 (5), 1365-1371, 2015
5652015
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