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Number of items: 38.
Journal Article
Jenkins, Paul, Pollock, M. and Roberts, Gareth O. (2023) Flexible Bayesian inference for diffusion processes using splines. Methodology & Computing in Applied Probability, 25 . 83. doi:10.1007/s11009-023-10056-9
Brown, Suzie, Jenkins, Paul, Johansen, Adam M. and Koskela, Jere (2023) Weak convergence of non-neutral genealogies to Kingman's coalescent. Stochastic Processes and their Applications, 162 . pp. 76-105. doi:10.1016/j.spa.2023.04.016 ISSN 0304-4149.
Griffiths, Robert C. and Jenkins, Paul (2023) An estimator for the recombination rate from a continuously observed diffusion of haplotype frequencies. Journal of Mathematical Biology, 86 . 98. doi:10.1007/s00285-023-01931-7 ISSN 0303-6812.
Sant, Jaromir, Jenkins, Paul A., Koskela, Jere and SpanΓ², Dario (2023) EWF : simulating exact paths of the WrightβFisher diffusion. Bioinformatics, 39 (1). btad017. doi:10.1093/bioinformatics/btad017 ISSN 1367-4803.
Sant, Jaromir, Jenkins, Paul, Koskela, Jere and SpanΓ², Dario (2022) Convergence of likelihood ratios and estimators for selection in nonneutral WrightβFisher diffusions. Scandinavian Journal of Statistics, 49 (4). pp. 1728-1760. doi:10.1111/sjos.12572 ISSN 0303-6898.
Mider, Marcin, Jenkins, Paul, Pollock, Murray and Roberts, Gareth O. (2022) The computational cost of blocking for sampling discretely observed diffusions. Methodology and Computing in Applied Probability, 24 . pp. 3007-3027. doi:10.1007/s11009-022-09949-y ISSN 1387-5841.
Ignatieva, Anastasia, Hein, Jotun and Jenkins, Paul A. (2022) Ongoing recombination in SARS-CoV-2 revealed through genealogical reconstruction. Molecular Biology and Evolution, 39 (2). msac028. doi:10.1093/molbev/msac028 ISSN 0737-4038.
Ignatieva, Anastasia, LyngsΓΈ, Rune B., Jenkins, Paul and Hein, Jotun (2021) KwARG : Parsimonious reconstruction of ancestral recombination graphs with recurrent mutation. Bioinformatics, 37 (19). pp. 3277-3284. btab351. doi:10.1093/bioinformatics/btab351 ISSN 1460-2059.
Brown, Suzie, Jenkins, Paul, Johansen, Adam M. and Koskela, Jere (2021) Simple conditions for convergence of sequential Monte Carlo genealogies with applications. Electronic Journal of Probability, 26 . 1. doi:10.1214/20-EJP561 ISSN 1083-6489.
Jenkins, Paul, Hepburn, Alex and Macdougall, Colin F. (2020) How and why children instigate talk in pediatric allergy consultations : a conversation analytic account. Social Science & Medicine, 266 . 113291. doi:10.1016/j.socscimed.2020.113291 ISSN 0277-9536.
Ignatieva, Anastasia, Hein, Jotun and Jenkins, Paul (2020) A characterisation of the genealogy of a birth-death process through time rescaling. Theoretical Population Biology, 134 . pp. 61-76. doi:10.1016/j.tpb.2020.05.001 ISSN 0040-5809.
Koskela, Jere, Jenkins, Paul, Johansen, Adam M. and SpanΓ², Dario (2020) Asymptotic genealogies of interacting particle systems with an application to sequential Monte Carlo. Annals of statistics, 48 (1). pp. 560-583. doi:10.1214/19-AOS1823 ISSN 0090-5364.
Koskela, Jere, SpanΓ², Dario and Jenkins, Paul (2019) Consistency of Bayesian nonparametric inference for discretely observed jump diffusions. Bernoulli, 25 (3). pp. 2183-2205. doi:10.3150/18-BEJ1050 ISSN 1350-7265.
Favaro, Stefano, Feng, Shui and Jenkins, Paul (2019) Bayesian nonparametric analysis of Kingmanβs coalescent. Annales de lβInstitut Henri PoincarΓ© - Probabilites et Statistiques, 55 (2). pp. 1087-1115. doi:10.1214/18-AIHP910 ISSN 0246-0203.
Griffiths, Robert, Jenkins, Paul and SpanΓ², Dario (2018) Wright-Fisher diffusion bridges. Theoretical Population Biology, 122 . pp. 67-77. doi:10.1016/j.tpb.2017.09.005 ISSN 0040-5809.
Koskela, Jere, Jenkins, Paul and SpanΓ², Dario (2018) Bayesian non-parametric inference for Ξ-coalescents : posterior consistency and a parametric method. Bernoulli, 24 (3). pp. 2122-2153. doi:10.3150/16-BEJ923 ISSN 1350-7265.
Perrone, Valerio, Jenkins, Paul, SpanΓ², Dario and Teh, Yee Whye (2018) Poisson random fields for dynamic feature models. Journal of Machine Learning Research, 18 (1). 4626-4670 . ISSN 1532-4435.
Koskela, Jere, SpanΓ², Dario and Jenkins, Paul (2018) Inference and rare event simulation for stopped Markov processes via reverse-time sequential Monte Carlo. Statistics and Computing, 28 (1). pp. 131-144. doi:10.1007/s11222-017-9722-1 ISSN 0960-3174.
Griffin, Adam, Jenkins, Paul, Roberts, Gareth O. and Spencer, Simon E. F. (2017) Simulation from quasi-stationary distributions on reducible state spaces. Advances in Applied Probability, 49 (3). pp. 960-980. doi:10.1017/apr.2017.28 ISSN 0001-8678.
Jenkins, Paul and SpanΓ², Dario (2017) Exact simulation of the Wright-Fisher diffusion. Annals of Applied Probability, 27 (3). pp. 1478-1509. doi:10.1214/16-AAP1236 ISSN 1050-5164.
Griffiths, Robert C., Jenkins, Paul and Lessard, Sabin (2016) A coalescent dual process for a Wright-Fisher diffusion with recombination and its application to haplotype partitioning. Theoretical Population Biology, 112 . pp. 126-138. doi:10.1016/j.tpb.2016.08.007 ISSN 0040-5809.
Dialdestoro, Kevin, Sibbesen, Jonas Andreas, Maretty, Lasse, Raghwani, Jayna, Gall, Astrid, Kellam, Paul, Pybus, Oliver, Hein, Jotun and Jenkins, Paul (2016) Coalescent inference using serially sampled, high-throughput sequencing data from intrahost HIV infection. Genetics, 202 (4). pp. 1449-1472. ISSN 0016-6731.
Koskela, Jere, Jenkins, Paul and SpanΓ², Dario (2015) Computational inference beyond Kingman's coalescent. Journal of Applied Probability, Volume 52 (Number 2). pp. 519-537. ISSN 0021-9002.
Fearnhead, Paul, Jenkins, Paul and Song, Yun S. (2015) Tractable diffusion and coalescent processes for weakly correlated loci. Electronic Journal of Probability, Volume 20 . pp. 1-26. Article number 58. doi:10.1214/EJP.v20-3564 ISSN 1083-6489.
Jenkins, Paul, Mueller, Jonas W. and Song, Yun S. (2014) General triallelic frequency spectrum under demographic models with variable population size. Genetics, Volume 196 (Number 1). pp. 295-311. doi:10.1534/genetics.113.158584 ISSN 0016-6731.
Chan, Andrew H., Jenkins, Paul and Song, Yun S. (2012) Genome-wide fine-scale recombination rate variation in Drosophila melanogaster. PLoS Genetics, Vol.8 (No.12). e1003090. doi:10.1371/journal.pgen.1003090 ISSN 1553-7390.
Jenkins, Paul, Song, Yun S. and Brem, Rachel B. (2012) Genealogy-based methods for inference of historical recombination and gene flow and their application in Saccharomyces cerevisiae. PLoS One, Volume 7 (Number 11). Article number e46947. doi:10.1371/journal.pone.0046947 ISSN 1932-6203.
Jenkins, Paul and Song, Yun S. (2012) PadΓ© approximants and exact two-locus sampling distributions. Annals of Applied Probability, Vol.22 (No.2). pp. 576-607. doi:10.1214/11-AAP780 ISSN 1050-5164.
Jenkins, Paul (2012) Stopping-time resampling and population genetic inference under coalescent models. Statistical Applications in Genetics and Molecular Biology, Vol.11 (No.1). pp. 1-20. doi:10.2202/1544-6115.1770 ISSN 2194-6302.
Jenkins, Paul and Griffiths, Robert C. (2011) Inference from samples of DNA sequences using a two-locus model. Journal of Computational Biology , Vol.18 (No.1). pp. 109-127. doi:10.1089/cmb.2009.0231 ISSN 1066-5277.
Jenkins, Paul and Song, Yun S. (2011) The effect of recurrent mutation on the frequency spectrum of a segregating site and the age of an allele. Theoretical Population Biology, Vol.80 (No.2). pp. 158-173. doi:10.1016/j.tpb.2011.04.001 ISSN 0040-5809.
Jenkins, Paul and Song, Yun S. (2010) An asymptotic sampling formula for the coalescent with recombination. Annals of Applied Probability, Vol.20 (No.3). pp. 1005-1028. doi:10.1214/09-AAP646 ISSN 1050-5164.
Jenkins, Paul and Song, Yun S (2009) Closed-form two-locus sampling distributions : accuracy and universality. Genetics, Vol.183 (No.3). pp. 1087-1103. doi:10.1534/genetics.109.107995 ISSN 0016-6731.
Griffiths, Robert C., Jenkins, Paul and Song, Yun S. (2008) Importance sampling and the two-locus model with subdivided population structure. Advances in Applied Probability, Vol.40 (No.2). pp. 473-500. doi:10.1239/aap/1214950213 ISSN 0001-8678.
Book Item
Chan, J., Perrone, Valerio, Spence, J. P., Jenkins, Paul, Mathieson, S. and Song, Y. S. (2019) A likelihood-free inference framework for population genetic data using exchangeable neural networks. In: Bengio, Samy and Wallach, Hanna M. and Larochelle, Hugo and Grauman, Kristen and Cesa-Bianchi, NicolΓ², (eds.) Advances in Neural Information Processing Systems 31 (NIPS 2018). Curran Associates, Inc, pp. 8594-8605.
Jenkins, Paul, LyngsΓΈ, Rune and Hein, Jotun (2006) How many transcripts does it take to reconstruct the splice graph? In: Algorithms in Bioinformatics. Lecture Notes in Computer Science, Vol.4175 . Berlin: Springer Verlag, pp. 103-114. ISBN 9783540395836
Conference Item
Kim, Woojung, Jenkins, Paul A. and Yau, Christopher (2022) Feature allocation approach for multimorbidity trajectory modelling. In: 2nd Machine Learning for Health symposium (ML4H 2022), New Orleans, USA and virtual, 28 Nov 2022. Published in: Proceedings of Machine Learning Research, 193 pp. 103-119. ISSN 2640-3498.
Working or Discussion Paper
Jenkins, Paul A., Koskela, Jere, Sant, Jaromir, SpanΓ², Dario and ValentiΔ, Ivana (2023) Excursion theory for the Wright--Fisher diffusion. Working Paper. UNSPECIFIED. (Unpublished)
This list was generated on Thu Apr 18 01:45:42 2024 BST.