Andrew Rambaut

According to our database, Andrew Rambaut authored at least 29 papers between 1995 and 2023.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2023

SCORPIO: a utility for defining and classifying mutation constellations of virus genomes.

Rachel Colquhoun, Ben Jackson, Áine Niamh O'toole, Andrew Rambaut

Bioinform., October, 2023

2021

Massive Parallelization Boosts Big Bayesian Multidimensional Scaling.

Andrew J. Holbrook, Philippe Lemey, Guy Baele, Simon Dellicour, Dirk Brockmann, Andrew Rambaut, Marc A. Suchard

J. Comput. Graph. Stat., 2021

2019

BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis.

Remco R. Bouckaert, Timothy G. Vaughan, Joëlle Barido-Sottani, Sebastián Duchêne, Mathieu Fourment, Alexandra Gavryushkina, Joseph Heled, Graham Jones, Denise Kühnert, Nicola De Maio, Michael Matschiner, Fábio K. Mendes, Nicola F. Müller, Huw A. Ogilvie, Louis du Plessis, Alex Popinga, Andrew Rambaut, David A. Rasmussen, Igor Siveroni, Marc A. Suchard, Chieh-Hsi Wu, Dong Xie, Chi Zhang, Tanja Stadler, Alexei J. Drummond

PLoS Comput. Biol., 2019

2017

Lorenzo-Redondo <i>et al</i>. reply.

Ramon Lorenzo-Redondo, Helen R. Fryer, Trevor Bedford, Eun-Young Kim, John A. C. Archer, Sergei L. Kosakovsky Pond, Yoon-Seok Chung, Sudhir Penugonda, Jeffrey G. Chipman, Courtney V. Fletcher, Timothy W. Schacker, Michael H. Malim, Andrew Rambaut, Ashley T. Haase, Angela R. McLean, Steven M. Wolinsky

Nat., 2017

Establishment and cryptic transmission of Zika virus in Brazil and the Americas.

Nuno R. Faria, Joshua Quick, I. M. Claro, Julien Thézé, J. G. de Jesus, Marta Giovanetti, Moritz U. G. Kraemer, S. C. Hill, Allison Black, A. C. Da Costa, L. C. Franco, S. P. Silva, Chieh-Hsi Wu, Jayna Raghwani, Simon Cauchemez, Louis du Plessis, M. P. Verotti, W. K. de Oliveira, E. H. Carmo, G. E. Coelho, A. C. F. S. Santelli, L. C. Vinhal, C. M. Henriques, J. T. Simpson, Matthew Loose, Kristian G. Andersen, N. D. Grubaugh, S. Somasekar, C. Y. Chiu, J. E. Muñoz-Medina, C. R. Gonzalez-Bonilla, Carolina Fócil Arias, L. L. Lewis-Ximenez, S. A. Baylis, A. O. Chieppe, S. F. Aguiar, C. A. Fernandes, P. S. Lemos, B. L. S. Nascimento, H. A. O. Monteiro, I. C. Siqueira, M. G. de Queiroz, T. R. de Souza, J. F. Bezerra, M. R. Lemos, G. F. Pereira, D. Loudal, L. C. Moura, R. Dhalia, R. F. França, T. Magalhães, E. T. Marques Jr, Thomas Jaenisch, Gabriel da Luz Wallau, M. C. de Lima, V. Nascimento, E. M. de Cerqueira, M. M. de Lima, D. L. Mascarenhas, J. P. Moura Neto, A. S. Levin, T. R. Tozetto-Mendoza, S. N. Fonseca, M. C. Mendes-Correa, F. P. Milagres, Aluisio Segurado, Edward C. Holmes, Andrew Rambaut, Trevor Bedford, M. R. T. Nunes, Ester C. Sabino, Luis Carlos Alcantara, Nicholas J. Loman, Oliver G. Pybus

Nat., 2017

Virus genomes reveal factors that spread and sustained the Ebola epidemic.

Gytis Dudas, Luiz Max Carvalho, Trevor Bedford, Andrew J. Tatem, Guy Baele, Nuno R. Faria, Daniel J. Park, Jason T. Ladner, Armando Arias, Danny Asogun, Filip Bielejec, Sarah L. Caddy, Matthew Cotten, Jonathan D'Ambrozio, Simon Dellicour, Antonino Di Caro, Joseph W. Diclaro, Sophie Duraffour, Michael J. Elmore, Lawrence S. Fakoli, Ousmane Faye, Merle L. Gilbert, Sahr M. Gevao, Stephen Gire, Adrianne Gladden-Young, Andreas Gnirke, Augustine Goba, Donald S. Grant, Bart L. Haagmans, Julian A. Hiscox, Umaru Jah, Jeffrey R. Kugelman, Di Liu, Jia Lu, Christine M. Malboeuf, Suzanne Mate, David A. Matthews, Christian B. Matranga, Luke W. Meredith, James Qu, Joshua Quick, Suzan D. Pas, My V. T. Phan, Georgios Pollakis, Chantal B. Reusken, Mariano Sanchez-Lockhart, Stephen F. Schaffner, John S. Schieffelin, Rachel S. G. Sealfon, Etienne Simon-Loriere, Saskia L. Smits, Kilian Stoecker, Lucy Thorne, Ekaete Alice Tobin, Mohamed A. Vandi, Simon J. Watson, Kendra West, Shannon Whitmer, Michael R. Wiley, Sarah M. Winnicki, Shirlee Wohl, Roman Wölfel, Nathan L. Yozwiak, Kristian G. Andersen, Sylvia O. Blyden, Fatorma Bolay, Miles W. Carroll, Bernice Dahn, Boubacar Diallo, Pierre Formenty, Christophe Fraser, George F. Gao, Robert F. Garry, Ian Goodfellow, Stephan Günther, Christian T. Happi, Edward C. Holmes, Brima Kargbo, Sakoba Keïta, Paul Kellam, Marion Koopmans, Jens H. Kuhn, Nicholas J. Loman, N'Faly Magassouba, Dhamari Naidoo, Stuart T. Nichol, Tolbert Nyenswah, Gustavo F. Palacios, Oliver G. Pybus, Pardis C. Sabeti, Amadou Sall, Ute Ströher, Isatta Wurie, Marc A. Suchard, Philippe Lemey, Andrew Rambaut

Nat., 2017

Adaptive MCMC in Bayesian phylogenetics: an application to analyzing partitioned data in BEAST.

Guy Baele, Philippe Lemey, Andrew Rambaut, Marc A. Suchard

Bioinform., 2017

2015

Epidemic Reconstruction in a Phylogenetics Framework: Transmission Trees as Partitions of the Node Set.

Matthew Hall, Mark E. J. Woolhouse, Andrew Rambaut

PLoS Comput. Biol., 2015

Global circulation patterns of seasonal influenza viruses vary with antigenic drift.

Trevor Bedford, Steven Riley, Ian G. Barr, Shobha Broor, Mandeep Chadha, Nancy J. Cox, Rodney S. Daniels, C. Palani Gunasekaran, Aeron C. Hurt, Anne Kelso, Alexander Klimov, Nicola S. Lewis, Xiyan Li, John W. McCauley, Takato Odagiri, Varsha Potdar, Andrew Rambaut, Yuelong Shu, Eugene Skepner, Derek J. Smith, Marc A. Suchard, Masato Tashiro, Dayan Wang, Xiyan Xu, Philippe Lemey, Colin A. Russell

Nat., 2015

2014

The Genealogical Population Dynamics of HIV-1 in a Large Transmission Chain: Bridging within and among Host Evolutionary Rates.

Bram Vrancken, Andrew Rambaut, Marc A. Suchard, Alexei J. Drummond, Guy Baele, Inge Derdelinckx, Eric Van Wijngaerden, Anne-Mieke Vandamme, Kristel Van Laethem, Philippe Lemey

PLoS Comput. Biol., 2014

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis.

Remco R. Bouckaert, Joseph Heled, Denise Kühnert, Timothy G. Vaughan, Chieh-Hsi Wu, Dong Xie, Marc A. Suchard, Andrew Rambaut, Alexei J. Drummond

PLoS Comput. Biol., 2014

πBUSS: a parallel BEAST/BEAGLE utility for sequence simulation under complex evolutionary scenarios.

Filip Bielejec, Philippe Lemey, Luiz Carvalho, Guy Baele, Andrew Rambaut, Marc A. Suchard

BMC Bioinform., 2014

2013

Reconstruction of an HIV Transmission History in a Bayesian Coalescent Framework.

Bram Vrancken, Andrew Rambaut, Guy Baele, Anne-Mieke Vandamme, Kristel Van Laethem, Eric Van Wijngaerden, Alexei J. Drummond, Marc A. Suchard, Philippe Lemey

Proceedings of the International Work-Conference on Bioinformatics and Biomedical Engineering, 2013

2012

Analysis of high-depth sequence data for studying viral diversity: a comparison of next generation sequencing platforms using Segminator II.

John P. Archer, Greg Baillie, Simon J. Watson, Paul Kellam, Andrew Rambaut, David L. Robertson

BMC Bioinform., 2012

2011

SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics.

Filip Bielejec, Andrew Rambaut, Marc A. Suchard, Philippe Lemey

Bioinform., 2011

2010

The Evolutionary Analysis of Emerging Low Frequency HIV-1 CXCR4 Using Variants through Time - An Ultra-Deep Approach.

John P. Archer, Andrew Rambaut, Bruce E. Taillon, P. Richard Harrigan, Marilyn Lewis, David L. Robertson

PLoS Comput. Biol., 2010

2009

Bayesian Phylogeography Finds Its Roots.

Philippe Lemey, Andrew Rambaut, Alexei J. Drummond, Marc A. Suchard

PLoS Comput. Biol., 2009

The RNA Virus Database.

Robert Belshaw, Tulio de Oliveira, Sidney Markowitz, Andrew Rambaut

Nucleic Acids Res., 2009

Many-core algorithms for statistical phylogenetics.

Marc A. Suchard, Andrew Rambaut

Bioinform., 2009

2008

Estimation of an <i>in vivo</i> fitness landscape experienced by HIV-1 under drug selective pressure useful for prediction of drug resistance evolution during treatment.

Koen Deforche, Ricardo Camacho, Kristel Van Laethem, Philippe Lemey, Andrew Rambaut, Yves Moreau, Anne-Mieke Vandamme

Bioinform., 2008

2007

Synonymous Substitution Rates Predict HIV Disease Progression as a Result of Underlying Replication Dynamics.

Philippe Lemey, Sergei L. Kosakovsky Pond, Alexei J. Drummond, Oliver G. Pybus, Beth Shapiro, Helena Barroso, Nuno Taveira, Andrew Rambaut

PLoS Comput. Biol., 2007

Estimating the Relative Contribution of dNTP Pool Imbalance and APOBEC3G/3F Editing to HIV Evolution <i>In Vivo</i>.

Koen Deforche, Ricardo Camacho, Kristel Van Laethem, Beth Shapiro, Yves Moreau, Andrew Rambaut, Anne-Mieke Vandamme, Philippe Lemey

J. Comput. Biol., 2007

2002

GENIE: estimating demographic history from molecular phylogenies.

Oliver G. Pybus, Andrew Rambaut

Bioinform., 2002

2000

Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies.

Andrew Rambaut

Bioinform., 2000

1997

End-Epi: an application for inferring phylogenetic and population dynamical processes from molecular sequences.

Andrew Rambaut, Paul H. Harvey, Sean Nee

Comput. Appl. Biosci., 1997

Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees.

Andrew Rambaut, Nicholas C. Grassly

Comput. Appl. Biosci., 1997

PSeq-Gen: an application for the Monte Carlo simulation of protein sequence evolution along phylogenetic trees.

Nicholas C. Grassly, Jun Adachi, Andrew Rambaut

Comput. Appl. Biosci., 1997

1996

Bi-De: an application for simulating phylogenetic processes.

Andrew Rambaut, Nicholas C. Grassly, Sean Nee, Paul H. Harvey

Comput. Appl. Biosci., 1996

1995

Comparative analysis by independent contrasts (CAIC): an Apple Macintosh application for analysing comparative data.

Andy Purvis, Andrew Rambaut

Comput. Appl. Biosci., 1995