| Year |
Citation |
Score |
| 2023 |
Tang M, Dudas G, Bedford T, Minin VN. Fitting stochastic epidemic models to gene genealogies using linear noise approximation. The Annals of Applied Statistics. 17: 1-22. PMID 37273682 DOI: 10.1214/21-aoas1583 |
0.42 |
|
| 2022 |
Goldstein IH, Wakefield J, Minin VN. Incorporating testing volume into estimation of effective reproduction number dynamics. Arxiv. PMID 35979401 |
0.347 |
|
| 2021 |
Fintzi J, Wakefield J, Minin VN. A linear noise approximation for stochastic epidemic models fit to partially observed incidence counts. Biometrics. PMID 34374071 DOI: 10.1111/biom.13538 |
0.356 |
|
| 2020 |
Fintzi J, Wakefield J, Minin VN. A linear noise approximation for stochastic epidemic models fit to partially observed incidence counts. Arxiv. PMID 33948449 |
0.356 |
|
| 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 |
0.344 |
|
| 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 |
0.376 |
|
| 2020 |
Dhar A, Ralph DK, Minin VN, Matsen FA. A Bayesian phylogenetic hidden Markov model for B cell receptor sequence analysis. Plos Computational Biology. 16: e1008030. PMID 32804924 DOI: 10.1371/Journal.Pcbi.1008030 |
0.4 |
|
| 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 |
0.36 |
|
| 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 |
0.473 |
|
| 2019 |
Feng J, Shaw DA, Minin VN, Simon N, Matsen FA. Survival analysis of DNA mutation motifs with penalized proportional hazards. The Annals of Applied Statistics. 13: 1268-1294. PMID 33214798 DOI: 10.1214/18-Aoas1233 |
0.354 |
|
| 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 |
0.43 |
|
| 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 |
0.483 |
|
| 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 |
0.45 |
|
| 2018 |
Chattopadhyay S, Chi PB, Minin VN, Berg DE, Sokurenko EV. Recombination-independent rapid convergent evolution of the gastric pathogen Helicobacter pylori. Bmc Genomics. 19: 835. PMID 30463511 DOI: 10.1186/s12864-018-5231-7 |
0.454 |
|
| 2018 |
Dhar A, Davidsen K, Matsen FA, Minin VN. Predicting B cell receptor substitution profiles using public repertoire data. Plos Computational Biology. 14: e1006388. PMID 30332400 DOI: 10.1371/Journal.Pcbi.1006388 |
0.347 |
|
| 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 |
0.434 |
|
| 2018 |
DeWitt WS, Mesin L, Victora GD, Minin VN, Matsen FA. Using genotype abundance to improve phylogenetic inference. Molecular Biology and Evolution. PMID 29474671 DOI: 10.1093/Molbev/Msy020 |
0.409 |
|
| 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 |
0.498 |
|
| 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 |
0.455 |
|
| 2017 |
Dhar A, Minin VN. Calculating Higher-Order Moments of Phylogenetic Stochastic Mapping Summaries in Linear Time. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 28177780 DOI: 10.1089/Cmb.2016.0172 |
0.336 |
|
| 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 |
0.414 |
|
| 2016 |
Koepke AA, Longini IM, Halloran ME, Wakefield J, Minin VN. PREDICTIVE MODELING OF CHOLERA OUTBREAKS IN BANGLADESH. The Annals of Applied Statistics. 10: 575-595. PMID 27746850 DOI: 10.1214/16-Aoas908 |
0.697 |
|
| 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 |
0.457 |
|
| 2016 |
Linkem CW, Minin VN, Leaché AD. Detecting the anomaly zone in species trees and evidence for a misleading signal in higher-level skink phylogeny (Squamata: Scincidae). Systematic Biology. PMID 26738927 DOI: 10.1093/Sysbio/Syw001 |
0.31 |
|
| 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 |
0.421 |
|
| 2016 |
Xu J, Koelle SJ, Guttorp P, Wu C, Dunbar CE, Abkowitz JL, Minin V. Stochastic Modeling of Hematopoietic Stem and Progenitor Cell Barcoding Data from Rhesus Macaques Challenges the Classic Model of Hematopoiesis Blood. 128: 2643-2643. DOI: 10.1182/Blood.V128.22.2643.2643 |
0.373 |
|
| 2015 |
McCoy CO, Bedford T, Minin VN, Bradley P, Robins H, Matsen FA. Quantifying evolutionary constraints on B-cell affinity maturation. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 370. PMID 26194758 DOI: 10.1098/Rstb.2014.0244 |
0.388 |
|
| 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 |
0.426 |
|
| 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 |
0.427 |
|
| 2015 |
Chi PB, Chattopadhyay S, Lemey P, Sokurenko EV, Minin VN. Synonymous and nonsynonymous distances help untangle convergent evolution and recombination. Statistical Applications in Genetics and Molecular Biology. PMID 26061623 DOI: 10.1515/Sagmb-2014-0078 |
0.572 |
|
| 2015 |
Lange JM, Hubbard RA, Inoue LY, Minin VN. A joint model for multistate disease processes and random informative observation times, with applications to electronic medical records data. Biometrics. 71: 90-101. PMID 25319319 DOI: 10.1111/Biom.12252 |
0.64 |
|
| 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 |
0.442 |
|
| 2014 |
Irvahn J, Minin VN. Phylogenetic stochastic mapping without matrix exponentiation. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 21: 676-90. PMID 24918812 DOI: 10.1089/Cmb.2014.0062 |
0.355 |
|
| 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 |
0.604 |
|
| 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 |
0.404 |
|
| 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 |
0.426 |
|
| 2013 |
Irvahn J, Chattopadhyay S, Sokurenko EV, Minin VN. rbrothers: R Package for Bayesian Multiple Change-Point Recombination Detection. Evolutionary Bioinformatics Online. 9: 235-8. PMID 23818749 DOI: 10.4137/Ebo.S11945 |
0.33 |
|
| 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 |
0.658 |
|
| 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 |
0.433 |
|
| 2013 |
Leaché AD, Palacios JA, Minin VN, Bryson RW. Phylogeography of the Trans-Volcanic bunchgrass lizard (Sceloporus bicanthalis) across the highlands of south-eastern Mexico Biological Journal of the Linnean Society. 110: 852-865. DOI: 10.1111/Bij.12172 |
0.315 |
|
| 2012 |
Ryu S, Goodlett DR, Noble WS, Minin VN. A statistical approach to peptide identification from clustered tandem mass spectrometry data. Proceedings. Ieee International Conference On Bioinformatics and Biomedicine. 648-653. PMID 23828149 DOI: 10.1109/BIBMW.2012.6470214 |
0.583 |
|
| 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 |
0.433 |
|
| 2012 |
Sawaya SM, Lennon D, Buschiazzo E, Gemmell N, Minin VN. Measuring microsatellite conservation in mammalian evolution with a phylogenetic birth-death model. Genome Biology and Evolution. 4: 636-47. PMID 22593552 DOI: 10.1093/Gbe/Evs050 |
0.347 |
|
| 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. |
0.345 |
|
| 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 |
0.426 |
|
| 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 |
0.468 |
|
| 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 |
0.37 |
|
| 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 |
0.465 |
|
| 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 |
0.369 |
|
| 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 |
0.37 |
|
| 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 |
0.373 |
|
| 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 |
0.422 |
|
| 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 |
0.484 |
|
| 2004 |
Liu X, Minin V, Huang Y, Seligson DB, Horvath S. Statistical methods for analyzing tissue microarray data. Journal of Biopharmaceutical Statistics. 14: 671-85. PMID 15468758 DOI: 10.1081/Bip-200025657 |
0.375 |
|
| 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 |
0.488 |
|
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