| HyPhy: hypothesis testing using phylogenies SLK Pond, SV Muse Statistical methods in molecular evolution, 125-181, 2005 | 2803 | 2005 |
| 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 | 1643 | 2005 |
| Datamonkey: rapid detection of selective pressure on individual sites of codon alignments SLK Pond, SDW Frost Bioinformatics 21 (10), 2531-2533, 2005 | 1288 | 2005 |
| 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 | 1127* | 2010 |
| Detecting individual sites subject to episodic diversifying selection B Murrell, JO Wertheim, S Moola, T Weighill, K Scheffler, SLK Pond PLoS genet 8 (7), e1002764, 2012 | 933 | 2012 |
| 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 | 807 | 2006 |
| 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 | 653 | 2013 |
| GARD: a genetic algorithm for recombination detection SL Kosakovsky Pond, D Posada, MB Gravenor, CH Woelk, SDW Frost Bioinformatics 22 (24), 3096-3098, 2006 | 646 | 2006 |
| Persistent HIV-1 replication maintains the tissue reservoir during therapy R Lorenzo-Redondo, HR Fryer, T Bedford, EY Kim, J Archer, SLK Pond, ... Nature 530 (7588), 51-56, 2016 | 476 | 2016 |
| Multiple emergences of genetically diverse amphibian-infecting chytrids include a globalized hypervirulent recombinant lineage RA Farrer, LA Weinert, J Bielby, TWJ Garner, F Balloux, F Clare, J Bosch, ... Proceedings of the National Academy of Sciences 108 (46), 18732-18736, 2011 | 406 | 2011 |
| A random effects branch-site model for detecting episodic diversifying selection SL Kosakovsky Pond, B Murrell, M Fourment, SDW Frost, W Delport, ... Molecular biology and evolution 28 (11), 3033-3043, 2011 | 398 | 2011 |
| Neutralizing antibody responses drive the evolution of human immunodeficiency virus type 1 envelope during recent HIV infection SDW Frost, T Wrin, DM Smith, SLK Pond, Y Liu, E Paxinos, C Chappey, ... Proceedings of the National Academy of Sciences 102 (51), 18514-18519, 2005 | 370 | 2005 |
| 28-way vertebrate alignment and conservation track in the UCSC Genome Browser W Miller, K Rosenbloom, RC Hardison, M Hou, J Taylor, B Raney, ... Genome research 17 (12), 1797-1808, 2007 | 288 | 2007 |
| Site-to-site variation of synonymous substitution rates SK Pond, SV Muse Molecular biology and evolution 22 (12), 2375-2385, 2005 | 259 | 2005 |
| 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 | 248 | 2015 |
| Adaptation to different human populations by HIV-1 revealed by codon-based analyses SLK Pond, SDW Frost, Z Grossman, MB Gravenor, DD Richman, ... PLoS Comput Biol 2 (6), e62, 2006 | 241 | 2006 |
| Persistence of transmitted drug resistance among subjects with primary human immunodeficiency virus infection SJ Little, SDW Frost, JK Wong, DM Smith, SLK Pond, CC Ignacio, ... Journal of virology 82 (11), 5510-5518, 2008 | 239 | 2008 |
| 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 | 224 | 2015 |
| 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 | 219 | 2018 |
| 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 | 217 | 2015 |
Simon DW FrostMicrosoft ResearchVerified email at microsoft.com
