Peter Pfaffelhuber
Office hours:
Please write an email if you want to contact me.
Adress:
Abteilung für Mathematische Stochastik
Albert-Ludwigs University of Freiburg
Ernst-Zermelo-Straße 1
Zimmer 233
D - 79104 Freiburg
Tel: +49-761-203-5667
Fax: +49-761-203-5661
E-Mail: peter[dot]pfaffelhuber[at]stochastik[dot]uni-freiburg[dot]de
- Probabilistic modeling in the life sciences
- Population genetics
- Chemical reaction networks
- Formalizing probability
My research is published in both, mathematical and biological
journals. Only peer-reviewed papers are listed.
Here is the list from
MathSciNet
Here is the list from
google scholar
- Probabilistic genetic identification of wild boar hybridization to support control of invasive wild pigs (Sus scrofa). Ecosphere 15(2), 15 (2), e4774 , 2024.
- The martingale problem method revisited. Electronic Journal of Probability, 28, 1--46 , 2023.
- A diploid population model for copy number variation of genetic elements. Electronic Journal of Probability, 28, 1--15 , 2023.
- A unified framework for limit results in chemical reaction networks on multiple time-scales. Electronic Journal of Probability, 28, 1--33 , 2023.
- Mean-field limits for non-linear Hawkes processes with excitation and inhibition. Stochastic Processes and their Applications, 153, 57--78 , 2022.
- Inference of recent admixture using genotype data. Forensic Science International: Genetics, 56, 102593 , 2022.
- Neural networks for self-adjusting mutation rate estimation when the recombination rate is unknown. PLOS Computational Biology 18(8), 18 (8), e1010407 , 2022.
- A central limit theorem concerning uncertainty in estimates of individual admixture. Theoretical Population Biology, 148, 28--39 , 2022.
- Europe’s Roma people are vulnerable to poor practice in genetics. Nature 599(7885), 599 (7885), 368--371 , 2021.
- The range of once-reinforced random walk in one dimension. Random Structures \& Algorithms 58(1), 58 (1), 164--175 , 2021.
- The partial duplication random graph with edge deletion. ALEA, 18, 325--347 , 2021.
- Pgainsim: A Method to Assess the Mode of Inheritance for Quantitative Trait Loci in Genome-Wide Association Studies. Human Heredity, 85 (2), 91--92 , 2021.
- How to choose sets of ancestry informative markers: A supervised feature selection approach. Forensic Science International: Genetics, 46, 102259 , 2020.
- Inference of historical population-size changes with allele-frequency data. G3: Genes, Genomes, Genetics 10(1), 10 (1), 211--223 , 2020.
- Markov branching processes with disasters: extinction, survival and duality to p-jump processes. Stochastic Processes and their Applications 130(4), 130 (4), 2488--2518 , 2020.
- Modifiers of mutation rate in selectively fluctuating environments. Stochastic Processes and their Applications 130(11), 130 (11), 6843--6862 , 2020.
- Genealogical distances under low levels of selection. Theoretical Population Biology, 131, 2--11 , 2020.
- Interdisziplin\"are Überlegungen zu Erweiterten DNA-Analysen. Jahrbuch f\"ur Wissenschaft und Ethik 24(1), 24 (1), 119--154 , 2019.
- High-complexity regions in mammalian genomes are enriched for developmental genes. Bioinformatics 35(11), 35 (11), 1813--1819 , 2019.
- Forensic DNA phenotyping legislation cannot be based on “Ideal FDP”—A response to Caliebe, Krawczak and Kayser (2017). Forensic Science International: Genetics, 34, e13--e14 , 2018.
- Limits of noise for autoregulated gene expression. Journal of mathematical biology 77(4), 77 (4), 1153--1191 , 2018.
- The fixation probability and time for a doubly beneficial mutant. Stochastic Processes and their Applications 128(12), 128 (12), 4018--4050 , 2018.
- The independent loss model with ordered insertions for the evolution of CRISPR spacers. Theoretical Population Biology, 119, 72--82 , 2018.
- Fixation probabilities and hitting times for low levels of frequency-dependent selection. Theoretical Population Biology, 124, 61--69 , 2018.
- A spatial model for selection and cooperation. Journal of Applied Probability 54(2), 54 (2), 522--539 , 2017.
- Large-scale behavior of the partial duplication random graph. ALEA. Latin American Journal of Probability \& Mathematical Statistics, 13, 687--710 , 2016.
- The fixation time of a strongly beneficial allele in a structured population. Electron. J. Probab 21(61), 21 (61), 1--42 , 2016.
- In silico modeling of the dynamics of low density lipoprotein composition via a single plasma sample [S]. Journal of lipid research 57(5), 57 (5), 882--893 , 2016.
- andi: Fast and accurate estimation of evolutionary distances between closely related genomes. Bioinformatics 31(8), 31 (8), 1169--1175 , 2015.
- Classification of phenotypic subpopulations in isogenic bacterial cultures by triple promoter probing at single cell level. Journal of Biotechnology, 198, 3--14 , 2015.
- Stochastic gene expression with delay. Journal of theoretical biology, 364, 355--363 , 2015.
- Scaling limits of spatial compartment models for chemical reaction networks. The Annals of Applied Probability 25(6), 25 (6), 3162--3208 , 2015.
- The stationary distribution of a markov jump process glued together from two state spaces at two vertices. Stochastic Models 31(4), 31 (4), 525--553 , 2015.
- How spatial heterogeneity shapes multiscale biochemical reaction network dynamics. Journal of the Royal Society Interface 12(104), 12 (104), 20141106 , 2015.
- A mixing tree-valued process arising under neutral evolution with recombination. Electronic Journal of Probability, 20, 1--22 , 2015.
- Genome-wide linkage-disequilibrium profiles from single individuals. Genetics 198(1), 198 (1), 269--281 , 2014.
- The infinitely many genes model with horizontal gene transfer. Electron. J. Probab 19(115), 19 (115), 1--27 , 2014.
- Some large deviations in Kingman's coalescent. Elec. Comm. Probab. 20(7), 20 (7), 1--14 , 2014.
- Some limit results for Markov chains indexed by trees. Elect. Comm. in Probab. 19(77), 19 (77), 1--11 , 2014.
- Correction: The Yule Approximation for the Site Frequency Spectrum after a Selective Sweep. Plos one 9(1), 9 (1), , 2014.
- Tree-valued resampling dynamics martingale problems and applications. Probability Theory and Related Fields 155(3-4), 155 (3-4), 789--838 , 2013.
- The ancestral selection graph under strong directional selection. Theoretical population biology, 87, 25--33 , 2013.
- An alignment-free test for recombination. Bioinformatics 29(24), 29 (24), 3121--3127 , 2013.
- Path-properties of the tree-valued Fleming--Viot process. Electron. J. Probab 18(84), 18 (84), 1--47 , 2013.
- A Brownian ratchet for protein translocation including dissociation of ratcheting sites. Journal of mathematical biology 66(3), 66 (3), 505--534 , 2013.
- Competing islands limit the rate of adaptation in structured populations. Theoretical population biology, 90, 1--11 , 2013.
- Modeling quorum sensing in Sinorhizobium meliloti. International Journal of Biomathematics and Biostatistics, 2, 59--74 , 2013.
- The yule approximation for the site frequency spectrum after a selective sweep. PLoS One 8(12), 8 (12), e81738 , 2013.
- The infinitely many genes model for the distributed genome of bacteria. Genome biology and evolution 4(4), 4 (4), 443--456 , 2012.
- Tree-valued Fleming-Viot dynamics with mutation and selection. Annals of applied probability 22(6), 22 (6), 2560--2615 , 2012.
- Muller's ratchet with compensatory mutations. Annals of applied probability 22(5), 22 (5), 2108--2132 , 2012.
- Alignment-free population genomics: an efficient estimator of sequence diversity. G3: Genes| Genomes| Genetics 2(8), 2 (8), 883--889 , 2012.
- Compact metric measure spaces and $\Lambda$-coalescents coming down from infinity. ALEA, 9, 269--278 , 2012.
- Marked metric measure spaces. Elect. Comm. in Probab., 16, 174--188 , 2011.
- The tree length of an evolving coalescent. Probability theory and related fields, 151, 529--557 , 2011.
- Alignment-free estimation of nucleotide diversity. Bioinformatics 27(4), 27 (4), 449--455 , 2011.
- Selective sweeps for recessive alleles and for other modes of dominance. Journal of mathematical biology 63(3), 63 (3), 399--431 , 2011.
- Estimating parameters of speciation models based on refined summaries of the joint site-frequency spectrum. PLoS One 6(5), 6 (5), e18155 , 2011.
- In silico modelling of human lipoprotein metabolism. Atherosclerosis Supplements, 12 (1), 22--23 , 2011.
- Sensitivity analysis of one parameter semigroups exemplified by the Wright--Fisher diffusion. Intern. J. Funct. Anal., Oper. Th. Appl. 3(2), 3 (2), 109--128 , 2011.
- mlRho--a program for estimating the population mutation and recombination rates from shotgun-sequenced diploid genomes. Molecular ecology, 19, 277--284 , 2010.
- The diversity of a distributed genome in bacterial populations. The Annals of Applied Probability, 1567--1606 , 2010.
- The Aldous--Shields model revisited (with application to cellular ageing). Elec. Comm. Probab., 15, 475--488 , 2010.
- Asymptotics of a Brownian ratchet for protein translocation. Stochastic processes and their applications 120(6), 120 (6), 901--925 , 2010.
- Experimentelle und theoretische Biologie: getrennte Welten?. Biologie in unserer Zeit 40(1), 40 (1), 12--12 , 2010.
- The impact of sampling schemes on the site frequency spectrum in nonequilibrium subdivided populations. Genetics 182(1), 182 (1), 205--216 , 2009.
- Convergence in distribution of random metric measure spaces ($\Lambda$-coalescent measure trees). Probability Theory and Related Fields 145(1-2), 145 (1-2), 285--322 , 2009.
- Estimating mutation distances from unaligned genomes. Journal of Computational Biology 16(10), 16 (10), 1487--1500 , 2009.
- How often does the ratchet click? Facts, heuristics, asymptotics. Trends in stochastic analysis, 353, 365--390 , 2009.
- Linkage disequilibrium under genetic hitchhiking in finite populations. Genetics 179(1), 179 (1), 527--537 , 2008.
- The pattern of genetic hitchhiking under recurrent mutation. Elec. J. Probab. 13(68), 13 (68), 2069--2106 , 2008.
- Approximating genealogies for partially linked neutral loci under a selective sweep. Journal of mathematical biology 55(3), 55 (3), 299--330 , 2007.
- An approximate sampling formula under genetic hitchhiking. Annals of Applied Probability 16(2), 16 (2), , 2006.
- The process of most recent common ancestors in an evolving coalescent. Stochastic Processes and their Applications 116(12), 116 (12), 1836--1859 , 2006.
- Approximate genealogies under genetic hitchhiking. Genetics 174(4), 174 (4), 1995--2008 , 2006.
- The Finite System Scheme for State-dependent interacting multitype Branching Systems. ALEA, 2, 1--66 , 2006.