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About me
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Posts
COVID-19 experience
Published:
This is a diary for my COVID symptoms from May 16th-May 24th 2022. Translated from my original Chinese diary.
This Website
Published:
Just refurnished this new website. It was powered by Jekyll & AcademicPages. The domain yunyishen.ml was registered from dot.tk for free (as long as you renew every year).
gallery
preprints
Bayesian chain graph LASSO Models to Learn Sparse Networks with Predictors
Published:
Conditional Auto-Regressive LASSO
Recommended citation: Shen, Yunyi, and Solis-Lemus, Claudia. "Bayesian chain graph LASSO Models to Learn Sparse Networks with Predictors." arXiv (2020). https://arxiv.org/abs/2012.08397
On the posterior contraction of the multivariate spike-and-slab LASSO
Published:
Chain graph with spike-and-slab LASSO
Recommended citation: Shen, Yunyi, and Deshpande, Sameer K. "On the posterior contraction of the multivariate spike-and-slab LASSO." arXiv (2022). https://arxiv.org/abs/2209.04389
Identify local limiting factors of species distribution using min-linear logistic regression
Published:
Chain graph with spike-and-slab LASSO
Recommended citation: Hongliang Bu and Shen, Yunyi† "Identify local limiting factors of species distribution using min-linear logistic regression." arXiv (2023). https://arxiv.org/abs/2302.09217
Consistent Validation for Predictive Methods in Spatial Settings.
Published:
spatial
Recommended citation: Burt, David R., Yunyi Shen, and Tamara Broderick. "Consistent Validation for Predictive Methods in Spatial Settings." arXiv preprint arXiv:2402.03527 (2024). https://arxiv.org/abs/2402.03527
Detecting stellar flares in photometric data using hidden Markov models.
Published:
astrostats
Recommended citation: Esquivel, J. Arturo*, Yunyi Shen*, Vianey Leos-Barajas, Gwendolyn Eadie, Joshua Speagle, Radu V. Craiu, Amber Medina, and James Davenport. "Detecting stellar flares in photometric data using hidden Markov models." arXiv preprint arXiv:2404.13145 (2024). https://arxiv.org/abs/2404.13145
Multi-marginal Schrödinger Bridges with Iterative Reference Refinement.
Published:
Schrodinger bridges
Recommended citation: Shen, Yunyi*, Renato Berlinghieri*, and Tamara Broderick. "Multi-marginal Schrödinger Bridges with Iterative Reference Refinement." arXiv preprint arXiv:2408.06277 (2024). https://arxiv.org/abs/2408.06277
Approximations to worst-case data dropping: unmasking failure modes.
Published:
amip
Recommended citation: Huang, Jenny Y., David R. Burt, Tin D. Nguyen, Yunyi Shen, and Tamara Broderick. "Approximations to worst-case data dropping: unmasking failure modes." arXiv preprint arXiv:2408.09008 (2024). https://arxiv.org/abs/2408.09008
Rethinking Bradley-Terry Models in Preference-Based Reward Modeling: Foundations, Theory, and Alternatives.
Published:
LLM
Recommended citation: Sun, Hao*, Yunyi Shen*, and Jean-Francois Ton. "Rethinking Bradley-Terry Models in Preference-Based Reward Modeling: Foundations, Theory, and Alternatives." arXiv preprint arXiv:2411.04991 (2024). https://arxiv.org/abs/2411.04991
Explicit modeling of density dependence in spatial capture-recapture models.
Published:
spatial
Recommended citation: Zhao, Qing, and Yunyi Shen. "Explicit modeling of density dependence in spatial capture-recapture models." arXiv preprint arXiv:2412.09431 (2024). https://arxiv.org/abs/2412.09431
Double trouble: Predicting new variant counts across two heterogeneous populations.
Published:
Bayesian Nonparametrics
Recommended citation: Shen, Yunyi, Lorenzo Masoero, Joshua G. Schraiber, and Tamara Broderick. "Double trouble: Predicting new variant counts across two heterogeneous populations." arXiv preprint arXiv:2403.02154 (2024). https://arxiv.org/abs/2403.02154
publications
Evaluating the effectiveness of functional zones for black muntjac (Muntiacus crinifrons) protection in qianjiangyuan national park pilot site
Published in Biodiversity Science, 27(1)., 2019
Black Muntjc distribution in QJY nation park
Recommended citation: Yu, J., Shen, Y., Song, X., Chen, X., Li, S., & Shen, X. (2019). Evaluating the effectiveness of functional zones for black muntjac (Muntiacus crinifrons) protection in qianjiangyuan national park pilot site. Biodiversity Science, 27(1). https://doi.org/10.17520/biods.2018246
Using an integrative mapping approach to identify the distribution range and conservation needs of a large threatened mammal, the Asiatic black bear, in China
Published in accepted Global Ecology and Conservation, 2021
Asiatic Black Bear
Recommended citation: Shen, Yunyi, Liu, Mingzhang, Shen, Xiaoli and Li, Sheng. "Using an integrative mapping approach to identify the distribution range and conservation needs of a large threatened mammal, the Asiatic black bear, in China." Global Ecology and Conservation 2021. https://www.sciencedirect.com/science/article/pii/S2351989421003814?via%3Dihub
Spatially Explicit Modeling of Community Occupancy using Markov Random Field Models with Imperfect Observation: Mesocarnivores in Apostle Islands National Lakeshore.
Published in Ecological Modelling, 2021
Markov Random Field based occupancy model
Recommended citation: Shen, Yunyi†, Olson, Erik, and Van Deelen, Timothy. R. (2021). Spatially Explicit Modeling of Community Occupancy using Markov Random Field Models with Imperfect Observation: Mesocarnivores in Apostle Islands National Lakeshore. Ecological Modelling 459C (2021) 109712. https://www.sciencedirect.com/science/article/pii/S0304380021002660?via%3Dihub
Species-specific responses to white-nose syndrome in the Great Lakes region. Ecology and Evolution
Published in Ecology and Evolution, 13:e10267., 2023
Bats
Recommended citation: Mallinger, J., Goodwin, K., Kirschbaum, A., Shen, Y., Gillam, E., Olson E.. (2023). Species-specific responses to white-nose syndrome in the Great Lakes region. Ecology and Evolution, 13:e10267 http://dx.doi.org/10.1002/ece3.10267
Estimating Sparse Direct Effects in Multivariate Regression With the Spike-and-Slab LASSO
Published in Bayesian Analysis, 2024
Chain graph with spike-and-slab LASSO
Recommended citation: Shen, Yunyi, Solis-Lemus, Claudia and Deshpande, Sameer K. "Estimating Sparse Direct Effects in Multivariate Regression With the Spike-and-Slab LASSO" Bayesian Analysis 1.1 (2024): 1-25. https://projecteuclid.org/journalArticle/Download?urlid=10.1214%2F24-BA1430
The Effect of the Prior and the Experimental Design on the Inference of the Precision Matrix in Gaussian Chain Graph Models
Published in Journal of Agricultural, Biological and Environmental Statistics (2024), 2024
Conditional Auto-Regression experimental design
Recommended citation: Shen, Yunyi, and Solis-Lemus, Claudia. "The Effect of the Prior and the Experimental Design on the Inference of the Precision Matrix in Gaussian Chain Graph Models." Journal of Agricultural, Biological and Environmental Statistics (2024): 1-70. https://link.springer.com/article/10.1007/s13253-024-00621-1
research
Mapping the distribution of Asiatic Black Bear in China using Random Forest and Map Fusion Technique
Published:
Species distribution modeling using data from different resolution
Population Reconstruction of White Tailed Deer under Intensive Culling
Published:
Integrated population model and simulations
Spatial Explicit Multi-species Occupancy Modeling
Published:
Spatial explicit multi-species occupancy model and its application on the Apostle Island National Lakeshore
LASSO method for Conditional Autoregressions and Experimental design
Published:
Conditional Auto-Regressive LASSO and its experimental design on Microbiome of plant species
Detecting Flares using TESS Mission’s Photometric Data of M-Dwarfs
Published:
A Timeseries Model with (quasi-periodic) Gaussian Process Trend and Hidden Markov Firing
software
IsingOccu
Published:
Spatial explicit community occupancy model
ReCAP
Published:
Animal population reconstruction from multiple data sources
CARlasso
Published:
Conditional Autoregressive LASSO and extensions
robustcov
Published:
Collection of robust (sparse) precision matrix estimators
linconGaussR
Published:
Sampling multivariate Gaussian under linear constraints
talks
Identify critical knowledge gap and conservation needs of Asiatic Black Bear through high-resolution mapping
Published:
Yunyi Shen, Dajun Wang, Sheng Li ”Identify critical knowledge gap and conservation needs of Asiatic Black Bear through high-resolution mapping” Chinese Chapter of SCB Annual Conference 2017 Best grad uate student presentation award
Managing White-tailed Deer Under a Newly Evolving Paradigm: A Demonstration of the Effects of Density-Dependence
Published:
Dwayne Etter, John Humphreys, Tim Van Deelen, Gary Roloff, Yunyi Shen ”Managing White-tailed Deer Under a Newly Evolving Paradigm: A Demonstration of the Effects of Density-Dependence” 2019 annual TWS Conference
Age structure effects and population control in urban/suburban white-tailed deer, Chicago, IL 1992-2006
Published:
Yunyi Shen, Dwayne Etter, Tim Van Deelen, “Age structure effects and population control in urban/suburban white-tailed deer, Chicago, IL 1992-2006” 2020 Midwest Fish and Wildlife Conference
teaching
Teaching Assistant of CHEM 103
Undergraduate course, University of Wisconsin-Madison, Department of Chemistry, 2019
Teaching Assistant of CHEM 104
Undergraduate course, University of Wisconsin-Madison, Department of Chemistry, 2019