MCMC using $\textit{bouncy}$ Hamiltonian dynamics: A unifying framework for Hamiltonian Monte Carlo and piecewise deterministic Markov process samplers

Authors: Chin, Andrew, Nishimura, Akihiko

Subject Terms: Statistics - Computation, Statistics - Methodology

Access URL: http://arxiv.org/abs/2405.08290

A Robust Bayesian Method for Building Polygenic Risk Scores using Projected Summary Statistics and Bridge Prior

Authors: Dun, Yuzheng, Chatterjee, Nilanjan, Jin, Jin, Nishimura, Akihiko

Subject Terms: Statistics - Methodology

Access URL: http://arxiv.org/abs/2401.15014

Commentary on Guyll et al. (2023): Misuse of Statistical Method Results in Highly Biased Interpretation of Forensic Evidence

Authors: Rosenblum, Michael, Chin, Elizabeth T., Ogburn, Elizabeth L., Nishimura, Akihiko, Westreich, Daniel, Datta, Abhirup, Vanderplas, Susan, Cuellar, Maria, Thompson, William C.

Subject Terms: Statistics - Applications

Access URL: http://arxiv.org/abs/2309.04409

Bayesian Safety Surveillance with Adaptive Bias Correction

Authors: Bu, Fan, Schuemie, Martijn J., Nishimura, Akihiko, Smith, Louisa H., Kostka, Kristin, Falconer, Thomas, McLeggon, Jody-Ann, Ryan, Patrick B., Hripcsak, George, Suchard, Marc A.

Subject Terms: Statistics - Methodology, Statistics - Applications

Access URL: http://arxiv.org/abs/2305.12034

Novel strut-based stochastic lattice biomimetically designed based on the structural and mechanical characteristics of cancellous bone

Authors: Yamada, Satoshi ^{a, ⁎}, Suzuki, Hayato ^b, Sawada, Kazuki ^c, Okada, Shimpei ^c, Nishimura, Akihiko ^c, Todoh, Masahiro ^a

Source: In Materials & Design March 2025 251

hdtg: An R package for high-dimensional truncated normal simulation

Authors: Zhang, Zhenyu, Chin, Andrew, Nishimura, Akihiko, Suchard, Marc A.

Subject Terms: Statistics - Computation, Statistics - Applications

Access URL: http://arxiv.org/abs/2210.01097

Adjusting for both sequential testing and systematic error in safety surveillance using observational data: Empirical calibration and MaxSPRT

Authors: Schuemie, Martijn J., Bu, Fan, Nishimura, Akihiko, Suchard, Marc A.

Subject Terms: Statistics - Methodology

Access URL: http://arxiv.org/abs/2207.02704

Computational Statistics and Data Science in the Twenty-first Century

Authors: Holbrook, Andrew J., Nishimura, Akihiko, Ji, Xiang, Suchard, Marc A.

Subject Terms: Statistics - Other Statistics

Access URL: http://arxiv.org/abs/2204.05530

Accelerating Bayesian inference of dependency between complex biological traits

Authors: Zhang, Zhenyu, Nishimura, Akihiko, Trovão, Nídia S., Cherry, Joshua L., Holbrook, Andrew J., Ji, Xiang, Lemey, Philippe, Suchard, Marc A.

Subject Terms: Statistics - Methodology, Quantitative Biology - Populations and Evolution, Statistics - Computation

Access URL: http://arxiv.org/abs/2201.07291

Learning and Predicting from Dynamic Models for COVID-19 Patient Monitoring

Authors: Wang, Zitong, Bowring, Mary Grace, Rosen, Antony, Garibaldi, Brian T., Nishimura, Akihiko, Zeger, Scott L.

Subject Terms: Statistics - Applications

Access URL: http://arxiv.org/abs/2111.01817

Similar Risk of Kidney Failure among Patients with Blinding Diseases Who Receive Ranibizumab, Aflibercept, and Bevacizumab: An Observational Health Data Sciences and Informatics Network Study

Authors: Cai, Cindy X., Nishimura, Akihiko, Bowring, Mary G., Westlund, Erik, Tran, Diep, Ng, Jia H., Nagy, Paul, Cook, Michael, McLeggon, Jody-Ann, DuVall, Scott L., Matheny, Michael E., Golozar, Asieh, Ostropolets, Anna, Minty, Evan, Desai, Priya, Bu, Fan, Toy, Brian, Hribar, Michelle, Falconer, Thomas, Zhang, Linying, Lawrence-Archer, Laurence, Boland, Michael V., Goetz, Kerry, Hall, Nathan, Shoaibi, Azza, Reps, Jenna, Sena, Anthony G., Blacketer, Clair, Swerdel, Joel, Jhaveri, Kenar D., Lee, Edward, Gilbert, Zachary, Zeger, Scott L., Crews, Deidra C., Suchard, Marc A., Hripcsak, George, Ryan, Patrick B.

Source: In Ophthalmology Retina August 2024 8(8):733-743

Shrinkage-based random local clocks with scalable inference

Authors: Fisher, Alexander A., Ji, Xiang, Nishimura, Akihiko, Lemey, Philippe, Suchard, Marc A.

Subject Terms: Statistics - Methodology, Quantitative Biology - Populations and Evolution

Access URL: http://arxiv.org/abs/2105.07119

Zigzag path connects two Monte Carlo samplers: Hamiltonian counterpart to a piecewise deterministic Markov process

Authors: Nishimura, Akihiko, Zhang, Zhenyu, Suchard, Marc A.

Subject Terms: Statistics - Computation, Mathematics - Probability

Access URL: http://arxiv.org/abs/2104.07694

Alpha-1 adrenergic receptor antagonists to prevent hyperinflammation and death from lower respiratory tract infection

Authors: Koenecke, Allison, Powell, Michael, Xiong, Ruoxuan, Shen, Zhu, Fischer, Nicole, Huq, Sakibul, Khalafallah, Adham M., Trevisan, Marco, Sparen, Pär, Carrero, Juan J, Nishimura, Akihiko, Caffo, Brian, Stuart, Elizabeth A., Bai, Renyuan, Staedtke, Verena, Thomas, David L., Papadopoulos, Nickolas, Kinzler, Kenneth W., Vogelstein, Bert, Zhou, Shibin, Bettegowda, Chetan, Konig, Maximilian F., Mensh, Brett, Vogelstein, Joshua T., Athey, Susan

Source: Elife 10 (2021): e61700

Subject Terms: Quantitative Biology - Tissues and Organs, Quantitative Biology - Quantitative Methods

Access URL: http://arxiv.org/abs/2004.10117

Adjusting for both sequential testing and systematic error in safety surveillance using observational data: Empirical calibration and MaxSPRT

Authors: Schuemie, Martijn J., Bu, Fan, Nishimura, Akihiko, Suchard, Marc A.

Source: Statistics in medicine. 42(5):619-631

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100173483735.0x000001&indx=1&recIds=ETOCvdc_100173483735.0x000001

Large-scale inference of correlation among mixed-type biological traits with phylogenetic multivariate probit models

Authors: Zhang, Zhenyu, Nishimura, Akihiko, Bastide, Paul, Ji, Xiang, Payne, Rebecca P., Goulder, Philip, Lemey, Philippe, Suchard, Marc A.

Subject Terms: Statistics - Methodology, Quantitative Biology - Populations and Evolution, Statistics - Computation

Access URL: http://arxiv.org/abs/1912.09185

Shrinkage with shrunken shoulders: Gibbs sampling shrinkage model posteriors with guaranteed convergence rates

Authors: Nishimura, Akihiko, Suchard, Marc A.

Subject Terms: Statistics - Methodology, Mathematics - Statistics Theory

Access URL: http://arxiv.org/abs/1911.02160

Gradients do grow on trees: a linear-time ${\cal O}\hspace{-0.2em}\left( N \right)$-dimensional gradient for statistical phylogenetics

Authors: Ji, Xiang, Zhang, Zhenyu, Holbrook, Andrew, Nishimura, Akihiko, Baele, Guy, Rambaut, Andrew, Lemey, Philippe, Suchard, Marc A.

Subject Terms: Statistics - Computation, Quantitative Biology - Populations and Evolution, Statistics - Methodology

Access URL: http://arxiv.org/abs/1905.12146

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Prior-preconditioned conjugate gradient method for accelerated Gibbs sampling in 'large $n$ & large $p$' Bayesian sparse regression

Authors: Nishimura, Akihiko, Suchard, Marc A.

Subject Terms: Statistics - Computation, Statistics - Machine Learning

Access URL: http://arxiv.org/abs/1810.12437