Cancer's second genome: microbial cancer diagnostics and redefining clonal evolution as a multispecies process: humans and their tumors are not aseptic, and the …
GD Sepich‐Poore, C Guccione, L Laplane… - …, 2022 - Wiley Online Library
The presence and role of microbes in human cancers has come full circle in the last century.
Tumors are no longer considered aseptic, but implications for cancer biology and oncology …
Tumors are no longer considered aseptic, but implications for cancer biology and oncology …
Frequent asymmetric migrations suppress natural selection in spatially structured populations
Natural microbial populations often have complex spatial structures. This can impact their
evolution, in particular the ability of mutants to take over. While mutant fixation probabilities …
evolution, in particular the ability of mutants to take over. While mutant fixation probabilities …
Sampling probabilities, diffusions, ancestral graphs, and duality under strong selection
M Favero, PA Jenkins - arXiv preprint arXiv:2312.17406, 2023 - arxiv.org
Wright-Fisher diffusions and their dual ancestral graphs occupy a central role in the study of
allele frequency change and genealogical structure, and they provide expressions, explicit …
allele frequency change and genealogical structure, and they provide expressions, explicit …
Approximate filtering via discrete dual processes
We consider the task of filtering a dynamic parameter evolving as a diffusion process, given
data collected at discrete times from a likelihood which is conjugate to the reversible law of …
data collected at discrete times from a likelihood which is conjugate to the reversible law of …
Filtering coupled Wright–Fisher diffusions
C Boetti, M Ruggiero - Journal of Mathematical Biology, 2024 - Springer
Abstract Coupled Wright–Fisher diffusions have been recently introduced to model the
temporal evolution of finitely-many allele frequencies at several loci. These are vectors of …
temporal evolution of finitely-many allele frequencies at several loci. These are vectors of …
Exact simulation of coupled Wright–Fisher diffusions
In this paper an exact rejection algorithm for simulating paths of the coupled Wright–Fisher
diffusion is introduced. The coupled Wright–Fisher diffusion is a family of multivariate Wright …
diffusion is introduced. The coupled Wright–Fisher diffusion is a family of multivariate Wright …
On a multilocus Wright-Fisher model with mutation and a Svirezhev-Shahshahani gradient-like selection dynamics
In this paper we introduce a multilocus diffusion model of a population of $ N $ haploid,
asexually reproducing individuals. The model includes parent-dependent mutation and …
asexually reproducing individuals. The model includes parent-dependent mutation and …
Dual process in the two-parameter Poisson–Dirichlet diffusion
Abstract The two-parameter Poisson–Dirichlet diffusion takes values in the infinite ordered
simplex and extends the celebrated infinitely-many-neutral-alleles model, having a two …
simplex and extends the celebrated infinitely-many-neutral-alleles model, having a two …
Asymptotic behaviour of sampling and transition probabilities in coalescent models under selection and parent dependent mutations
The results in this paper provide new information on asymptotic properties of classical
models: the neutral Kingman coalescent under a general finite-alleles, parent-dependent …
models: the neutral Kingman coalescent under a general finite-alleles, parent-dependent …
Weak convergence of the scaled jump chain and number of mutations of the Kingman coalescent
The Kingman coalescent is a fundamental process in population genetics modelling the
ancestry of a sample of individuals backwards in time. In this paper, in a large-sample-size …
ancestry of a sample of individuals backwards in time. In this paper, in a large-sample-size …