Arash Jamshidpey

Papers and Preprints

• Sampling Gene Adjacencies and Geodesic Points of Random Genomes, with P.H. da Silva and D. Sankoff. Lecture Notes in Computer Science, v. 14616, pp. 189-210, 2024.

• Another view of sequential sampling in the birth process with immigration, with P.H. da Silva and S. Tavaré. Journal of Mathematical Biology 88 (3), 27, 2024.

• Escape from parsimony of a double-cut-and-join genome evolution process, with M. Meghdari Miardan, D. Sankoff. Journal of Computational Biology, 30:2, pp. 118-130, 2023.

• Fisher’s measure of variability in repeated samples, with P.H. da Silva, P. McCullagh, S. Tavaré. Bernoulli 29, no. 2, pp. 1166-1194, 2023.

• Markov chains arising from biased random derangements, with P.H. da Silva and S. Tavaré, submitted, arXiv:2211.13831, 2022.

• The Feller coupling for random derangements, with P.H. da Silva and S. Tavaré, Stochastic Processes and their Applications, 150, pp.1139-1164, 2022.

• An ergodic theorem for Fleming-Viot models in random environments, arXiv:1701.03224, 2017.

• Partial-geodesics on symmetric groups endowed with the breakpoint distance, with P.H. da Silva and D. Sankoff, arXiv:1801.04673, 2017.

• Median inverse problem and approximating the number of k-median inverses of a permutation, with P.H. da Silva and D. Sankoff, arXiv:1712.02878, 2017.

• Asymptotic medians of random permutations sampled from reversal random walks, with D. Sankoff, Theoretical Computer Science, DOI: 10.1016/j.tcs.2017.06.014, 2017.

• Sets of medians in the non-geodesic pseudometric space of unsigned genomes with breakpoints, with A. Jamshidpey and D. Sankoff; BMC Genomics, 15 S6:S3, 2014.

• Phase change for the accuracy of the median value in estimating divergence time, with D. Sankoff; BMC Bioinformatics, v14s15, 2013.

• Ph.D. thesis on Population dynamics in random environments, random walks on symmetric groups, and phylogeny reconstruction, University of Ottawa online theses, 2016.

Papers in preparation

• Fleming-Viot population systems with interacting and fluctuating selection, with D. Dawson. 

• Limit theorems for a look-down system of Fleming-Viot processes with mutation and fluctuating selection, with D. Dawson.

• An averaging theorem for Fleming-Viot processes with fast fluctuating selection.

• Sequential sampling and analysis of sample variance for the Birth-Death-and-Immigration model, with P.H. da Silva and S. Tavaré.

• Fleming-Viot processes with polynomial frequency-dependent selection.

Some other projects

• An ongoing project on clonal branching models with time and clone-dependent rates, statistical inference methods for estimating various parameters such as clonal growth rates and fitnesses of types.

• An ongoing project on the genome rearrangement of cancer, modeling catastrophic rearrangements such as chromothripsis and chromoplexy, models of cancer genome evolution, and phylogeny reconstruction for cancer genome sequences, with Poly H. da Silva.

• An ongoing project on spatial birth-death and death-birth processes on graphs with time, space and clone-dependent fitness functions, with applications in cancer, with P.H. da Silva.

• A branching model for COVID-19 sample arrivals at a database, with P.H. da Silva and S. Tavaré.

•  A Poisson system for exchangeable samples drawn sequentially from a birth process with immigration.

• A project on the relation of random walks on groups and graphs (in particular on symmetric groups), their asymptotic geometry and boundaries, with Vadim Kaimanovich.

• Absolute continuity and singularity of random measures on the boundary of labelled infinite real trees