Konrad Scheffler

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Sergei L Kosakovsky PondProfessor of Biology, Institute for Genomics and Evolutionary Medicine, Temple UniversityVerified email at temple.edu
Ben MurrellDepartment of Microbiology, Tumor and Cell Biology, Karolinska InstitutetVerified email at ki.se
Joel WertheimProfessor, University of California San DiegoVerified email at ucsd.edu
Davey SmithProfessor of Medicine, University of California, San DiegoVerified email at ucsd.edu
Cathal SeoigheUniversity of GalwayVerified email at universityofgalway.ie
Martin D SmithSoftware Developer, Pacific Biosciences of CaliforniaVerified email at pacificbiosciences.com
Darren MartinUniversity of Cape TownVerified email at uct.ac.za
Steve YoungProfessor of Information EngineeringVerified email at eng.cam.ac.uk
Spencer MuseProfessor of Statistics, North Carolina State UniversityVerified email at ncsu.edu
Daniel ShewardKarolinska InstitutetVerified email at ki.se
Simon DW FrostMicrosoft PremonitionVerified email at microsoft.com
Kemal ErenUniversity of San Diego, CAVerified email at eng.ucsd.edu
Mathieu FourmentUniversity of Technology SydneyVerified email at uts.edu.au
Art FY PoonWestern UniversityVerified email at uwo.ca
Gert van ZylDivision of Medical Virology, Stellenbosch University and NHLS TygerbergVerified email at sun.ac.za
Charles SpillaneProfessor, SpillaneLab, Ryan Institute, University of Galway, IrelandVerified email at universityofgalway.ie
Marketa ZvelebilAssistant Professor in Cancer Informatics, ICRVerified email at icr.ac.uk
John S. TerblancheProfessor, Centre for Invasion Biology, Department of Conservation Ecology & EntomologyVerified email at sun.ac.za
Cang Hui | 惠蒼SARChI Professor, Biomathematics, Stellenbosch University; CIB; AIMSVerified email at sun.ac.za
Johan du PreezProfessor of Electrical and Electronic EngineeringVerified email at sun.ac.za

Konrad Scheffler

Illumina

Verified email at illumina.com

phylogenetics molecular evolution probabilistic modelling genomics


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Detecting individual sites subject to episodic diversifying selection B Murrell, JO Wertheim, S Moola, T Weighill, K Scheffler, ... PLoS genetics 8 (7), e1002764, 2012	1670	2012
Strelka2: fast and accurate calling of germline and somatic variants S Kim, K Scheffler, AL Halpern, MA Bekritsky, E Noh, M Källberg, X Chen, ... Nature methods 15 (8), 591-594, 2018	1319	2018
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	1267	2013
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	730	2015
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	665	2015
Kosakovsky Pond SL. 2012. Detecting individual sites subject to episodic diversifying selection B Murrell, JO Wertheim, S Moola, T Weighill, K Scheffler, L Sergei PLoS Genet 8 (7), e1002764, 0	612
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	574	2015
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	477	2011
ExpansionHunter: a sequence-graph-based tool to analyze variation in short tandem repeat regions E Dolzhenko, V Deshpande, F Schlesinger, P Krusche, R Petrovski, ... Bioinformatics 35 (22), 4754-4756, 2019	290	2019
Robust inference of positive selection from recombining coding sequences K Scheffler, DP Martin, C Seoighe Bioinformatics 22 (20), 2493-2499, 2006	233	2006
Timing the SARS-CoV-2 index case in Hubei province J Pekar, M Worobey, N Moshiri, K Scheffler, JO Wertheim Science 372 (6540), 412-417, 2021	211	2021
Automatic learning of dialogue strategy using dialogue simulation and reinforcement learning K Scheffler, S Young Proceedings of HLT 2, 0, 2002	201	2002
Evolutionary origins of human herpes simplex viruses 1 and 2 JO Wertheim, MD Smith, DM Smith, K Scheffler, SL Kosakovsky Pond Molecular biology and evolution 31 (9), 2356-2364, 2014	191	2014
Social and genetic networks of HIV-1 transmission in New York City JO Wertheim, SL Kosakovsky Pond, LA Forgione, SR Mehta, B Murrell, ... PLoS pathogens 13 (1), e1006000, 2017	184	2017
Corpus-based dialogue simulation for automatic strategy learning and evaluation K Scheffler, S Young Proc. NAACL Workshop on Adaptation in Dialogue Systems, 64-70, 2001	120	2001
Models of coding sequence evolution W Delport, K Scheffler, C Seoighe Briefings in bioinformatics 10 (1), 97-109, 2009	104	2009
CodonTest: modeling amino acid substitution preferences in coding sequences W Delport, K Scheffler, G Botha, MB Gravenor, SV Muse, ... PLoS computational biology 6 (8), e1000885, 2010	79	2010
Evolutionary fingerprinting of genes SL Kosakovsky Pond, K Scheffler, MB Gravenor, AFY Poon, SDW Frost Molecular biology and evolution 27 (3), 520-536, 2010	79	2010
Deep sequencing reveals minor protease resistance mutations in patients failing a protease inhibitor regimen R Fisher, GU van Zyl, SAA Travers, SL Kosakovsky Pond, S Engelbrech, ... Journal of virology 86 (11), 6231-6237, 2012	68	2012
Probabilistic simulation of human-machine dialogues K Scheffler, S Young 2000 IEEE International Conference on Acoustics, Speech, and Signal …, 2000	67	2000

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