Estimating the growth rate of a birth and death process using data from a small sample

The problem of estimating the growth rate of a birth and death processes based on the coalescence times of a sample of $n$ individuals has been considered by several authors (\cite{stadler2009incomplete, williams2022life, mitchell2022clonal, Johnson2023}). This problem has applications, for example, to cancer research, when one is interested in determining the growth rate of a clone. Recently, \cite{Johnson2023} proposed an analytical method for estimating the growth rate using the theory of coalescent point processes, which has comparable accuracy to more computationally intensive methods when the sample size $n$ is large. We use a similar approach to obtain an estimate of the growth rate that is not based on the assumption that $n$ is large. We demonstrate, through simulations using the R package \texttt{cloneRate}, that our estimator of the growth rate performs well in comparison with previous approaches when $n$ is small.

Publication Details

Journal
arXiv (Cornell University)
Published
2025-08-22
Primary Topic
Geochemistry and Geologic Mapping
Type
article
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article

Estimating the growth rate of a birth and death process using data from a small sample

arXiv (Cornell University)
Geochemistry and Geologic Mapping
article

Estimating the growth rate of a birth and death process using data from a small sample

article en

Abstract

The problem of estimating the growth rate of a birth and death processes based on the coalescence times of a sample of $n$ individuals has been considered by several authors (\cite{stadler2009incomplete, williams2022life, mitchell2022clonal, Johnson2023}). This problem has applications, for example, to cancer research, when one is interested in determining the growth rate of a clone. Recently, \cite{Johnson2023} proposed an analytical method for estimating the growth rate using the theory of coalescent point processes, which has comparable accuracy to more computationally intensive methods when the sample size $n$ is large. We use a similar approach to obtain an estimate of the growth rate that is not based on the assumption that $n$ is large. We demonstrate, through simulations using the R package \texttt{cloneRate}, that our estimator of the growth rate performs well in comparison with previous approaches when $n$ is small.

arXiv (Cornell University)
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Geochemistry and Geologic Mapping
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