Volodymyr Minin, Ph.D. - Publications

Affiliations: 
2007 University of California, Los Angeles, Los Angeles, CA 
Area:
Biostatistics Biology, Genetics

42 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Magee A, Karcher M, Matsen FA, Minin VM. How Trustworthy Is Your Tree? Bayesian Phylogenetic Effective Sample Size Through the Lens of Monte Carlo Error. Bayesian Analysis. 19: 565-593. PMID 38665694 DOI: 10.1214/22-ba1339  0.662
2023 Goldstein IH, Wakefield J, Minin VM. Incorporating testing volume into estimation of effective reproduction number dynamics. Journal of the Royal Statistical Society. Series a, (Statistics in Society). 187: 436-453. PMID 38617598 DOI: 10.1093/jrsssa/qnad128  0.302
2023 Goldstein IH, Parker DM, Jiang S, Minin VM. Semiparametric inference of effective reproduction number dynamics from wastewater pathogen surveillance data. Arxiv. PMID 37693183  0.325
2022 Goldstein IH, Wakefield J, Minin VN. Incorporating testing volume into estimation of effective reproduction number dynamics. Arxiv. PMID 35979401  0.302
2020 Magee AF, Höhna S, Vasylyeva TI, Leaché AD, Minin VN. Locally adaptive Bayesian birth-death model successfully detects slow and rapid rate shifts. Plos Computational Biology. 16: e1007999. PMID 33112848 DOI: 10.1371/journal.pcbi.1007999  0.681
2020 Karcher MD, Carvalho LM, Suchard MA, Dudas G, Minin VN. Estimating effective population size changes from preferentially sampled genetic sequences. Plos Computational Biology. 16: e1007774. PMID 33044955 DOI: 10.1371/journal.pcbi.1007774  0.589
2020 Fintzi J, Bayer D, Goldstein I, Lumbard K, Ricotta E, Warner S, Busch LM, Strich JR, Chertow DS, Parker DM, Boden-Albala B, Dratch A, Chhuon R, Quick N, Zahn M, ... Minin VN, et al. Using multiple data streams to estimate and forecast SARS-CoV-2 transmission dynamics, with application to the virus spread in Orange County, California. Arxiv. PMID 32908946  0.339
2020 Faulkner JR, Magee AF, Shapiro B, Minin VN. Rejoinder for discussion on "Horseshoe-based Bayesian nonparametric estimation of effective population size trajectories". Biometrics. PMID 32378741 DOI: 10.1111/Biom.13273  0.687
2020 Faulkner JR, Magee AF, Shapiro B, Minin VN. Horseshoe-based bayesian nonparametric estimation of effective population size trajectories. Biometrics. PMID 32277713 DOI: 10.1111/Biom.13276  0.728
2019 Fourment M, Magee AF, Whidden C, Bilge A, Matsen FA, Minin VN. 19 dubious ways to compute the marginal likelihood of a phylogenetic tree topology. Systematic Biology. PMID 31504998 DOI: 10.1093/Sysbio/Syz046  0.694
2019 Oaks JR, Cobb KA, Minin VN, Leaché AD. Marginal likelihoods in phylogenetics: a review of methods and applications. Systematic Biology. PMID 30668834 DOI: 10.1093/Sysbio/Syz003  0.396
2019 Xu J, Koelle S, Guttorp P, Wu C, Dunbar C, Abkowitz JL, Minin VN. Statistical inference for partially observed branching processes with application to cell lineage tracking of in vivo hematopoiesis The Annals of Applied Statistics. 13: 2091-2119. DOI: 10.1214/19-Aoas1272  0.344
2018 Faulkner JR, Minin VN. Locally Adaptive Smoothing with Markov Random Fields and Shrinkage Priors. Bayesian Analysis. 13: 225-252. PMID 29755638 DOI: 10.1214/17-Ba1050  0.347
2017 Fintzi J, Cui X, Wakefield J, Minin VN. Efficient Data Augmentation for Fitting Stochastic Epidemic Models to Prevalence Data. Journal of Computational and Graphical Statistics : a Joint Publication of American Statistical Association, Institute of Mathematical Statistics, Interface Foundation of North America. 26: 918-929. PMID 30515026 DOI: 10.1080/10618600.2017.1328365  0.406
2017 Ho LST, Xu J, Crawford FW, Minin VN, Suchard MA. Birth/birth-death processes and their computable transition probabilities with biological applications. Journal of Mathematical Biology. PMID 28741177 DOI: 10.1007/S00285-017-1160-3  0.685
2016 Karcher MD, Palacios JA, Lan S, Minin VN. phylodyn: an R package for phylodynamic simulation and inference. Molecular Ecology Resources. PMID 27801980 DOI: 10.1111/1755-0998.12630  0.345
2016 Karcher MD, Palacios JA, Bedford T, Suchard MA, Minin VN. Quantifying and Mitigating the Effect of Preferential Sampling on Phylodynamic Inference. Plos Computational Biology. 12: e1004789. PMID 26938243 DOI: 10.1371/Journal.Pcbi.1004789  0.579
2016 Koepke AA, Longini IM, Halloran ME, Wakefield J, Minin VN. Predictive modeling of cholera outbreaks in Bangladesh Annals of Applied Statistics. 10: 575-595. DOI: 10.1214/16-AOAS908  0.348
2015 Xu J, Minin VN. Efficient Transition Probability Computation for Continuous-Time Branching Processes via Compressed Sensing. Uncertainty in Artificial Intelligence : Proceedings of the ... Conference. Conference On Uncertainty in Artificial Intelligence. 2015: 952-961. PMID 26949377  0.301
2015 Xu J, Guttorp P, Kato-Maeda M, Minin VN. Likelihood-based inference for discretely observed birth-death-shift processes, with applications to evolution of mobile genetic elements. Biometrics. 71: 1009-21. PMID 26148963 DOI: 10.1111/Biom.12352  0.35
2015 Lan S, Palacios JA, Karcher M, Minin VN, Shahbaba B. An Efficient Bayesian Inference Framework for Coalescent-Based Nonparametric Phylodynamics. Bioinformatics (Oxford, England). PMID 26093147 DOI: 10.1093/Bioinformatics/Btv378  0.393
2014 Pankey MS, Minin VN, Imholte GC, Suchard MA, Oakley TH. Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid. Proceedings of the National Academy of Sciences of the United States of America. 111: E4736-42. PMID 25336755 DOI: 10.1073/Pnas.1416574111  0.395
2014 Crawford FW, Minin VN, Suchard MA. Estimation for general birth-death processes. Journal of the American Statistical Association. 109: 730-747. PMID 25328261 DOI: 10.1080/01621459.2013.866565  0.667
2014 Chi PB, Duncan AE, Kramer PA, Minin VN. Heritability estimation of osteoarthritis in the pig-tailed macaque (Macaca nemestrina) with a look toward future data collection. Peerj. 2: e373. PMID 24860700 DOI: 10.7717/Peerj.373  0.348
2014 Leaché AD, Fujita MK, Minin VN, Bouckaert RR. Species delimitation using genome-wide SNP data. Systematic Biology. 63: 534-42. PMID 24627183 DOI: 10.1093/Sysbio/Syu018  0.306
2013 Doss CR, Suchard MA, Holmes I, Kato-Maeda M, Minin VN. Fitting Birth-Death Processes to Panel Data with Applications to Bacterial DNA Fingerprinting. The Annals of Applied Statistics. 7: 2315-2335. PMID 26702330 DOI: 10.1214/13-Aoas673  0.526
2013 Lange JM, Minin VN. Fitting and interpreting continuous-time latent Markov models for panel data. Statistics in Medicine. 32: 4581-95. PMID 23740756 DOI: 10.1002/Sim.5861  0.321
2013 Palacios JA, Minin VN. Gaussian process-based Bayesian nonparametric inference of population size trajectories from gene genealogies. Biometrics. 69: 8-18. PMID 23409705 DOI: 10.1111/Biom.12003  0.421
2012 Lemey P, Minin VN, Bielejec F, Kosakovsky Pond SL, Suchard MA. A counting renaissance: combining stochastic mapping and empirical Bayes to quickly detect amino acid sites under positive selection. Bioinformatics (Oxford, England). 28: 3248-56. PMID 23064000 DOI: 10.1093/Bioinformatics/Bts580  0.54
2012 Kemal KS, Ramirez CM, Burger H, Foley B, Mayers D, Klimkait T, Hamy F, Anastos K, Petrovic K, Minin VN, Suchard MA, Weiser B. Recombination between variants from genital tract and plasma: evolution of multidrug-resistant HIV type 1. Aids Research and Human Retroviruses. 28: 1766-74. PMID 22364185 DOI: 10.1089/Aid.2011.0383  0.39
2012 Palacios JA, Minin VN. Integrated nested laplace approximation for bayesian nonparametric phylodynamics Uncertainty in Artificial Intelligence - Proceedings of the 28th Conference, Uai 2012. 726-735.  0.437
2011 Minin VN, O'Brien JD, Seregin A. Imputation estimators partially correct for model misspecification Statistical Applications in Genetics and Molecular Biology. 10. DOI: 10.2202/1544-6115.1650  0.354
2009 O'Brien JD, Minin VN, Suchard MA. Learning to count: robust estimates for labeled distances between molecular sequences. Molecular Biology and Evolution. 26: 801-14. PMID 19131426 DOI: 10.1093/Molbev/Msp003  0.585
2008 Minin VN, Suchard MA. Fast, accurate and simulation-free stochastic mapping. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 363: 3985-95. PMID 18852111 DOI: 10.1098/Rstb.2008.0176  0.493
2008 Minin VN, Bloomquist EW, Suchard MA. Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics. Molecular Biology and Evolution. 25: 1459-71. PMID 18408232 DOI: 10.1093/Molbev/Msn090  0.73
2008 Minin VN, Suchard MA. Counting labeled transitions in continuous-time Markov models of evolution. Journal of Mathematical Biology. 56: 391-412. PMID 17874105 DOI: 10.1007/S00285-007-0120-8  0.481
2007 Minin VN, Dorman KS, Fang F, Suchard MA. Phylogenetic mapping of recombination hotspots in human immunodeficiency virus via spatially smoothed change-point processes. Genetics. 175: 1773-85. PMID 17194781 DOI: 10.1534/Genetics.106.066258  0.485
2007 Fang F, Ding J, Minin VN, Suchard MA, Dorman KS. cBrother: relaxing parental tree assumptions for Bayesian recombination detection. Bioinformatics (Oxford, England). 23: 507-8. PMID 17145740 DOI: 10.1093/Bioinformatics/Btl613  0.494
2007 Rajaram ML, Minin VN, Suchard MA, Dorman KS. Hot and cold: Spatial fluctuation in HIV-1 recombination rates Proceedings of the 7th Ieee International Conference On Bioinformatics and Bioengineering, Bibe. 707-714. DOI: 10.1109/BIBE.2007.4375638  0.439
2005 Minin VN, Dorman KS, Fang F, Suchard MA. Dual multiple change-point model leads to more accurate recombination detection. Bioinformatics (Oxford, England). 21: 3034-42. PMID 15914546 DOI: 10.1093/Bioinformatics/Bti459  0.539
2005 Abdo Z, Minin VN, Joyce P, Sullivan J. Accounting for uncertainty in the tree topology has little effect on the decision-theoretic approach to model selection in phylogeny estimation. Molecular Biology and Evolution. 22: 691-703. PMID 15548751 DOI: 10.1093/Molbev/Msi050  0.398
2003 Minin V, Abdo Z, Joyce P, Sullivan J. Performance-based selection of likelihood models for phylogeny estimation. Systematic Biology. 52: 674-83. PMID 14530134 DOI: 10.1080/10635150390235494  0.396
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