Search Results - "Suchard, Marc A"

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7 by Rambaut, Andrew, Drummond, Alexei J., Xie, Dong, Baele, Guy, Suchard, Marc A.

“…Bayesian inference of phylogeny using Markov chain Monte Carlo (MCMC) plays a central role in understanding evolutionary history from molecular sequence data…”
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BEAST 2: a software platform for Bayesian evolutionary analysis by Bouckaert, Remco, Heled, Joseph, Kühnert, Denise, Vaughan, Tim, Wu, Chieh-Hsi, Xie, Dong, Suchard, Marc A, Rambaut, Andrew, Drummond, Alexei J

“…We present a new open source, extensible and flexible software platform for Bayesian evolutionary analysis called BEAST 2. This software platform is a…”
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The emergence of SARS-CoV-2 in Europe and North America by Worobey, Michael, Pekar, Jonathan, Larsen, Brendan B, Nelson, Martha I, Hill, Verity, Joy, Jeffrey B, Rambaut, Andrew, Suchard, Marc A, Wertheim, Joel O, Lemey, Philippe

“…Accurate understanding of the global spread of emerging viruses is critical for public health responses and for anticipating and preventing future outbreaks…”
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SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes by Bielejec, Filip, Baele, Guy, Vrancken, Bram, Suchard, Marc A, Rambaut, Andrew, Lemey, Philippe

“…Model-based phylogenetic reconstructions increasingly consider spatial or phenotypic traits in conjunction with sequence data to study evolutionary processes…”
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Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10 by Suchard, Marc A, Lemey, Philippe, Baele, Guy, Ayres, Daniel L, Drummond, Alexei J, Rambaut, Andrew

“…The Bayesian Evolutionary Analysis by Sampling Trees (BEAST) software package has become a primary tool for Bayesian phylogenetic and phylodynamic inference…”
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Many-core algorithms for statistical phylogenetics by Suchard, Marc A., Rambaut, Andrew

“…Motivation: Statistical phylogenetics is computationally intensive, resulting in considerable attention meted on techniques for parallelization. Codon-based…”
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Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty by Baele, Guy, Lemey, Philippe, Bedford, Trevor, Rambaut, Andrew, Suchard, Marc A, Alekseyenko, Alexander V

“…Recent developments in marginal likelihood estimation for model selection in the field of Bayesian phylogenetics and molecular evolution have emphasized the…”
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SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics by Bielejec, Filip, Rambaut, Andrew, Suchard, Marc A., Lemey, Philippe

“…SPREAD is a user-friendly, cross-platform application to analyze and visualize Bayesian phylogeographic reconstructions incorporating spatial-temporal…”
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Bayesian random local clocks, or one rate to rule them all by Drummond, Alexei J, Suchard, Marc A

“…Relaxed molecular clock models allow divergence time dating and "relaxed phylogenetic" inference, in which a time tree is estimated in the face of unequal…”
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Comprehensive comparative effectiveness and safety of first-line antihypertensive drug classes: a systematic, multinational, large-scale analysis by Suchard, Marc A, Schuemie, Martijn J, Krumholz, Harlan M, You, Seng Chan, Chen, RuiJun, Pratt, Nicole, Reich, Christian G, Duke, Jon, Madigan, David, Hripcsak, George, Ryan, Patrick B

“…Uncertainty remains about the optimal monotherapy for hypertension, with current guidelines recommending any primary agent among the first-line drug classes…”
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Empirical confidence interval calibration for population-level effect estimation studies in observational healthcare data by Schuemie, Martijn J., Hripcsak, George, Ryan, Patrick B., Madigan, David, Suchard, Marc A.

“…Observational healthcare data, such as electronic health records and administrative claims, offer potential to estimate effects of medical products at scale…”
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Comparison of Cardiovascular and Safety Outcomes of Chlorthalidone vs Hydrochlorothiazide to Treat Hypertension by Hripcsak, George, Suchard, Marc A, Shea, Steven, Chen, RuiJun, You, Seng Chan, Pratt, Nicole, Madigan, David, Krumholz, Harlan M, Ryan, Patrick B, Schuemie, Martijn J

“…Chlorthalidone is currently recommended as the preferred thiazide diuretic to treat hypertension, but no trials have directly compared risks and benefits. To…”
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Virome characterization of game animals in China reveals a spectrum of emerging pathogens by He, Wan-Ting, Hou, Xin, Zhao, Jin, Sun, Jiumeng, He, Haijian, Si, Wei, Wang, Jing, Jiang, Zhiwen, Yan, Ziqing, Xing, Gang, Lu, Meng, Suchard, Marc A., Ji, Xiang, Gong, Wenjie, He, Biao, Li, Jun, Lemey, Philippe, Guo, Deyin, Tu, Changchun, Holmes, Edward C., Shi, Mang, Su, Shuo

“…Game animals are wildlife species traded and consumed as food and are potential reservoirs for SARS-CoV and SARS-CoV-2. We performed a meta-transcriptomic…”
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Unifying viral genetics and human transportation data to predict the global transmission dynamics of human influenza H3N2 by Lemey, Philippe, Rambaut, Andrew, Bedford, Trevor, Faria, Nuno, Bielejec, Filip, Baele, Guy, Russell, Colin A, Smith, Derek J, Pybus, Oliver G, Brockmann, Dirk, Suchard, Marc A

“…Information on global human movement patterns is central to spatial epidemiological models used to predict the behavior of influenza and other infectious…”
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Bayesian phylogeography finds its roots by Lemey, Philippe, Rambaut, Andrew, Drummond, Alexei J, Suchard, Marc A

“…As a key factor in endemic and epidemic dynamics, the geographical distribution of viruses has been frequently interpreted in the light of their genetic…”
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Stability-mediated epistasis constrains the evolution of an influenza protein by Gong, Lizhi Ian, Suchard, Marc A, Bloom, Jesse D

“…John Maynard Smith compared protein evolution to the game where one word is converted into another a single letter at a time, with the constraint that all…”
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The molecular epidemiology of multiple zoonotic origins of SARS-CoV-2 by Pekar, Jonathan E, Magee, Andrew, Parker, Edyth, Moshiri, Niema, Izhikevich, Katherine, Havens, Jennifer L, Gangavarapu, Karthik, Malpica Serrano, Lorena Mariana, Crits-Christoph, Alexander, Matteson, Nathaniel L, Zeller, Mark, Levy, Joshua I, Wang, Jade C, Hughes, Scott, Lee, Jungmin, Park, Heedo, Park, Man-Seong, Ching Zi Yan, Katherine, Lin, Raymond Tzer Pin, Mat Isa, Mohd Noor, Noor, Yusuf Muhammad, Vasylyeva, Tetyana I, Garry, Robert F, Holmes, Edward C, Rambaut, Andrew, Suchard, Marc A, Andersen, Kristian G, Worobey, Michael, Wertheim, Joel O

“…Understanding the circumstances that lead to pandemics is important for their prevention. We analyzed the genomic diversity of severe acute respiratory…”
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Accommodating individual travel history and unsampled diversity in Bayesian phylogeographic inference of SARS-CoV-2 by Lemey, Philippe, Hong, Samuel L., Hill, Verity, Baele, Guy, Poletto, Chiara, Colizza, Vittoria, O’Toole, Áine, McCrone, John T., Andersen, Kristian G., Worobey, Michael, Nelson, Martha I., Rambaut, Andrew, Suchard, Marc A.

“…Spatiotemporal bias in genome sampling can severely confound discrete trait phylogeographic inference. This has impeded our ability to accurately track the…”
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The early spread and epidemic ignition of HIV-1 in human populations by Faria, Nuno R., Rambaut, Andrew, Suchard, Marc A., Baele, Guy, Bedford, Trevor, J. Ward, Melissa, Tatem, Andrew J., Sousa, João D., Arinaminpathy, Nimalan, Pépin, Jacques, Posada, David, Peeters, Martine, Pybus, Oliver G., Lemey, Philippe

“…Thirty years after the discovery of HIV-1, the early transmission, dissemination, and establishment of the virus in human populations remain unclear. Using…”
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Outbreak.info genomic reports: scalable and dynamic surveillance of SARS-CoV-2 variants and mutations by Gangavarapu, Karthik, Latif, Alaa Abdel, Mullen, Julia L., Alkuzweny, Manar, Hufbauer, Emory, Tsueng, Ginger, Haag, Emily, Zeller, Mark, Aceves, Christine M., Zaiets, Karina, Cano, Marco, Zhou, Xinghua, Qian, Zhongchao, Sattler, Rachel, Matteson, Nathaniel L., Levy, Joshua I., Lee, Raphael T. C., Freitas, Lucas, Maurer-Stroh, Sebastian, Suchard, Marc A., Wu, Chunlei, Su, Andrew I., Andersen, Kristian G., Hughes, Laura D.

“…In response to the emergence of SARS-CoV-2 variants of concern, the global scientific community, through unprecedented effort, has sequenced and shared over 11…”
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