Coalescent models derived from birth–death processes

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Coalescent models derived from birth–death processes. / Crespo, Fausto F.; Posada, David; Wiuf, Carsten.

I: Theoretical Population Biology, Bind 142, 2021, s. 1-11.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Harvard

Crespo, FF, Posada, D & Wiuf, C 2021, 'Coalescent models derived from birth–death processes', Theoretical Population Biology, bind 142, s. 1-11. https://doi.org/10.1016/j.tpb.2021.09.003

APA

Crespo, F. F., Posada, D., & Wiuf, C. (2021). Coalescent models derived from birth–death processes. Theoretical Population Biology, 142, 1-11. https://doi.org/10.1016/j.tpb.2021.09.003

Vancouver

Crespo FF, Posada D, Wiuf C. Coalescent models derived from birth–death processes. Theoretical Population Biology. 2021;142:1-11. https://doi.org/10.1016/j.tpb.2021.09.003

Author

Crespo, Fausto F. ; Posada, David ; Wiuf, Carsten. / Coalescent models derived from birth–death processes. I: Theoretical Population Biology. 2021 ; Bind 142. s. 1-11.

Bibtex

@article{b2ccaa1373d0462c906bdff5c44a2e38,
title = "Coalescent models derived from birth–death processes",
abstract = "A coalescent model of a sample of size n is derived from a birth–death process that originates at a random time in the past from a single founder individual. Over time, the descendants of the founder evolve into a population of large (infinite) size from which a sample of size n is taken. The parameters and time of the birth–death process are scaled in N0, the size of the present-day population, while letting N0→∞, similarly to how the standard Kingman coalescent process arises from the Wright–Fisher model. The model is named the Limit Birth–Death (LBD) coalescent model. Simulations from the LBD coalescent model with sample size n are computationally slow compared to standard coalescent models. Therefore, we suggest different approximations to the LBD coalescent model assuming the population size is a deterministic function of time rather than a stochastic process. Furthermore, we introduce a hybrid LBD coalescent model, that combines the exactness of the LBD coalescent model model with the speed of the approximations.",
keywords = "Bernoulli sampling, Conditioned reconstructed process, Founder population, Kingman coalescence, Variable population size coalescence",
author = "Crespo, {Fausto F.} and David Posada and Carsten Wiuf",
note = "Publisher Copyright: {\textcopyright} 2021 The Author(s)",
year = "2021",
doi = "10.1016/j.tpb.2021.09.003",
language = "English",
volume = "142",
pages = "1--11",
journal = "Theoretical Population Biology",
issn = "0040-5809",
publisher = "Academic Press",

}

RIS

TY - JOUR

T1 - Coalescent models derived from birth–death processes

AU - Crespo, Fausto F.

AU - Posada, David

AU - Wiuf, Carsten

N1 - Publisher Copyright: © 2021 The Author(s)

PY - 2021

Y1 - 2021

N2 - A coalescent model of a sample of size n is derived from a birth–death process that originates at a random time in the past from a single founder individual. Over time, the descendants of the founder evolve into a population of large (infinite) size from which a sample of size n is taken. The parameters and time of the birth–death process are scaled in N0, the size of the present-day population, while letting N0→∞, similarly to how the standard Kingman coalescent process arises from the Wright–Fisher model. The model is named the Limit Birth–Death (LBD) coalescent model. Simulations from the LBD coalescent model with sample size n are computationally slow compared to standard coalescent models. Therefore, we suggest different approximations to the LBD coalescent model assuming the population size is a deterministic function of time rather than a stochastic process. Furthermore, we introduce a hybrid LBD coalescent model, that combines the exactness of the LBD coalescent model model with the speed of the approximations.

AB - A coalescent model of a sample of size n is derived from a birth–death process that originates at a random time in the past from a single founder individual. Over time, the descendants of the founder evolve into a population of large (infinite) size from which a sample of size n is taken. The parameters and time of the birth–death process are scaled in N0, the size of the present-day population, while letting N0→∞, similarly to how the standard Kingman coalescent process arises from the Wright–Fisher model. The model is named the Limit Birth–Death (LBD) coalescent model. Simulations from the LBD coalescent model with sample size n are computationally slow compared to standard coalescent models. Therefore, we suggest different approximations to the LBD coalescent model assuming the population size is a deterministic function of time rather than a stochastic process. Furthermore, we introduce a hybrid LBD coalescent model, that combines the exactness of the LBD coalescent model model with the speed of the approximations.

KW - Bernoulli sampling

KW - Conditioned reconstructed process

KW - Founder population

KW - Kingman coalescence

KW - Variable population size coalescence

UR - http://www.scopus.com/inward/record.url?scp=85116898012&partnerID=8YFLogxK

U2 - 10.1016/j.tpb.2021.09.003

DO - 10.1016/j.tpb.2021.09.003

M3 - Journal article

C2 - 34563554

AN - SCOPUS:85116898012

VL - 142

SP - 1

EP - 11

JO - Theoretical Population Biology

JF - Theoretical Population Biology

SN - 0040-5809

ER -

ID: 283507588