Search Results - "Magee, Andrew"

Scalable gradients enable Hamiltonian Monte Carlo sampling for phylodynamic inference under episodic birth-death-sampling models by Shao, Yucai, Magee, Andrew F, Vasylyeva, Tetyana I, Suchard, Marc A

“…Birth-death models play a key role in phylodynamic analysis for their interpretation in terms of key epidemiological parameters. In particular, models with…”
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Locally adaptive Bayesian birth-death model successfully detects slow and rapid rate shifts by Magee, Andrew F, Höhna, Sebastian, Vasylyeva, Tetyana I, Leaché, Adam D, Minin, Vladimir N

“…Birth-death processes have given biologists a model-based framework to answer questions about changes in the birth and death rates of lineages in a…”
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Rapidly changing speciation and extinction rates can be inferred in spite of nonidentifiability by Kopperud, Bjørn T, Magee, Andrew F, Höhna, Sebastian

“…The birth-death model is commonly used to infer speciation and extinction rates by fitting the model to phylogenetic trees with exclusively extant taxa…”
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19 Dubious Ways to Compute the Marginal Likelihood of a Phylogenetic Tree Topology by Fourment, Mathieu, Magee, Andrew F., Whidden, Chris, Bilge, Arman, Matsen, Frederick A., Minin, Vladimir N.

“…The marginal likelihood of a model is a key quantity for assessing the evidence provided by the data in support of a model. The marginal likelihood is the…”
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Activation of the innate immune receptor Dectin-1 upon formation of a ‘phagocytic synapse’ by Goodridge, Helen S., Reyes, Christopher N., Becker, Courtney A., Katsumoto, Tamiko R., Ma, Jun, Wolf, Andrea J., Bose, Nandita, Chan, Anissa S. H., Magee, Andrew S., Danielson, Michael E., Weiss, Arthur, Vasilakos, John P., Underhill, David M.

“…How the innate immune system spots fungal pathogens Invading microbes are detected and ingested by white blood cells known as phagocytes. To do this they must…”
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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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Corrigendum to “Comparison of structural differences between yeast β-glucan sourced from different strains of saccharomyces cerevisiae and processed using proprietary manufacturing processes” [Food Chem. 367 (2021) 130708] by Boutros, Jean A., Magee, Andrew S., Cox, Donald

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Comparison of structural differences between yeast β-glucan sourced from different strains of saccharomyces cerevisiae and processed using proprietary manufacturing processes by Boutros, Jean A., Magee, Andrew S., Cox, Donald

“…•Beta-glucans investigated in this note are from four different yeast strains.•Chemical characterization studies reveal striking difference in their chemical…”
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A new island-scale tropical cyclone outlook for southwest Pacific nations and territories by Magee, Andrew D., Lorrey, Andrew M., Kiem, Anthony S., Colyvas, Kim

“…The southwest Pacific (SWP) region is vulnerable to tropical cyclone (TC) related impacts which adversely affect people, infrastructure and economies across…”
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On the surprising effectiveness of a simple matrix exponential derivative approximation, with application to global SARS-CoV-2 by Didier, Gustavo, Glatt-Holtz, Nathan E, Holbrook, Andrew J, Magee, Andrew F, Suchard, Marc A

“…The continuous-time Markov chain (CTMC) is the mathematical workhorse of evolutionary biology. Learning CTMC model parameters using modern, gradient-based…”
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Representation of a microstructure with bimodal grain size distribution through crystal plasticity and cohesive interface modeling by Magee, Andrew C., Ladani, Leila

“…•Modeled bimodal, heterogeneous material using crystal plasticity and cohesive interface models.•Extracted crystal plasticity constants for both phases from…”
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A new approach for location-specific seasonal outlooks of typhoon and super typhoon frequency across the Western North Pacific region by Magee, Andrew D., Kiem, Anthony S., Chan, Johnny C. L.

“…With an average of 26 tropical cyclones (TCs) per year, the western North Pacific (WNP) is the most active TC basin in the world. Considerable exposure lies in…”
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Using Indicators of ENSO, IOD, and SAM to Improve Lead Time and Accuracy of Tropical Cyclone Outlooks for Australia by Magee, Andrew D., Kiem, Anthony S.

“…Catastrophic impacts associated with tropical cyclone (TC) activity mean that the accurate and timely provision of TC outlooks are important to people, places,…”
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The dawn of open access to phylogenetic data by Magee, Andrew F, May, Michael R, Moore, Brian R

“…The scientific enterprise depends critically on the preservation of and open access to published data. This basic tenet applies acutely to phylogenies…”
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Robustness of Phylogenetic Inference to Model Misspecification Caused by Pairwise Epistasis by Magee, Andrew F, Hilton, Sarah K, DeWitt, William S

“…Abstract Likelihood-based phylogenetic inference posits a probabilistic model of character state change along branches of a phylogenetic tree. These models…”
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CRABS: Congruent rate analyses in birth–death scenarios by Höhna, Sebastian, Kopperud, Bjørn T., Magee, Andrew F.

“…Diversification rates inferred from phylogenies are not identifiable if the rates are allowed to vary freely over time. There are infinitely many combinations…”
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The influence of large-scale climate modes on tropical cyclone tracks in the southwest Pacific by Sharma, Krishneel K., Verdon-Kidd, Danielle C., Magee, Andrew D.

“…Tropical cyclones (TCs) impact the economy, properties, lives and infrastructure of island nations and territories of the southwest Pacific (SWP), accounting…”
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Horseshoe‐based Bayesian nonparametric estimation of effective population size trajectories by Faulkner, James R., Magee, Andrew F., Shapiro, Beth, Minin, Vladimir N.

“…Phylodynamics is an area of population genetics that uses genetic sequence data to estimate past population dynamics. Modern state‐of‐the‐art Bayesian…”
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Accelerated evolution of SARS-CoV-2 in free-ranging white-tailed deer by McBride, Dillon S., Garushyants, Sofya K., Franks, John, Magee, Andrew F., Overend, Steven H., Huey, Devra, Williams, Amanda M., Faith, Seth A., Kandeil, Ahmed, Trifkovic, Sanja, Miller, Lance, Jeevan, Trushar, Patel, Anami, Nolting, Jacqueline M., Tonkovich, Michael J., Genders, J. Tyler, Montoney, Andrew J., Kasnyik, Kevin, Linder, Timothy J., Bevins, Sarah N., Lenoch, Julianna B., Chandler, Jeffrey C., DeLiberto, Thomas J., Koonin, Eugene V., Suchard, Marc A., Lemey, Philippe, Webby, Richard J., Nelson, Martha I., Bowman, Andrew S.

“…The zoonotic origin of the COVID-19 pandemic virus highlights the need to fill the vast gaps in our knowledge of SARS-CoV-2 ecology and evolution in non-human…”
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Decadal variability of tropical cyclogenesis and decay in the southwest Pacific by Sharma, Krishneel K., Verdon‐Kidd, Danielle C., Magee, Andrew D.

“…Tropical cyclones (TCs) represent a significant hazard to the southwest Pacific (SWP) region, impacting on properties, lives and infrastructure, accounting for…”
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