Cargando…

Approximations to the expectations and variances of ratios of tree properties under the coalescent

Properties of gene genealogies such as tree height (H), total branch length (L), total lengths of external (E) and internal (I) branches, mean length of basal branches (B), and the underlying coalescence times (T) can be used to study population-genetic processes and to develop statistical tests of...

Descripción completa

Detalles Bibliográficos
Autores principales: Lappo, Egor, Rosenberg, Noah A
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9526068/
https://www.ncbi.nlm.nih.gov/pubmed/35951748
http://dx.doi.org/10.1093/g3journal/jkac205
_version_ 1784800797516627968
author Lappo, Egor
Rosenberg, Noah A
author_facet Lappo, Egor
Rosenberg, Noah A
author_sort Lappo, Egor
collection PubMed
description Properties of gene genealogies such as tree height (H), total branch length (L), total lengths of external (E) and internal (I) branches, mean length of basal branches (B), and the underlying coalescence times (T) can be used to study population-genetic processes and to develop statistical tests of population-genetic models. Uses of tree features in statistical tests often rely on predictions that depend on pairwise relationships among such features. For genealogies under the coalescent, we provide exact expressions for Taylor approximations to expected values and variances of ratios [Formula: see text] , for all 15 pairs among the variables [Formula: see text] , considering n leaves and [Formula: see text]. For expected values of the ratios, the approximations match closely with empirical simulation-based values. The approximations to the variances are not as accurate, but they generally match simulations in their trends as n increases. Although E(n) has expectation 2 and H(n) has expectation 2 in the limit as [Formula: see text] , the approximation to the limiting expectation for [Formula: see text] is not 1, instead equaling [Formula: see text]. The new approximations augment fundamental results in coalescent theory on the shapes of genealogical trees.
format Online
Article
Text
id pubmed-9526068
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-95260682022-10-03 Approximations to the expectations and variances of ratios of tree properties under the coalescent Lappo, Egor Rosenberg, Noah A G3 (Bethesda) Investigation Properties of gene genealogies such as tree height (H), total branch length (L), total lengths of external (E) and internal (I) branches, mean length of basal branches (B), and the underlying coalescence times (T) can be used to study population-genetic processes and to develop statistical tests of population-genetic models. Uses of tree features in statistical tests often rely on predictions that depend on pairwise relationships among such features. For genealogies under the coalescent, we provide exact expressions for Taylor approximations to expected values and variances of ratios [Formula: see text] , for all 15 pairs among the variables [Formula: see text] , considering n leaves and [Formula: see text]. For expected values of the ratios, the approximations match closely with empirical simulation-based values. The approximations to the variances are not as accurate, but they generally match simulations in their trends as n increases. Although E(n) has expectation 2 and H(n) has expectation 2 in the limit as [Formula: see text] , the approximation to the limiting expectation for [Formula: see text] is not 1, instead equaling [Formula: see text]. The new approximations augment fundamental results in coalescent theory on the shapes of genealogical trees. Oxford University Press 2022-08-11 /pmc/articles/PMC9526068/ /pubmed/35951748 http://dx.doi.org/10.1093/g3journal/jkac205 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Genetics Society of America. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Investigation
Lappo, Egor
Rosenberg, Noah A
Approximations to the expectations and variances of ratios of tree properties under the coalescent
title Approximations to the expectations and variances of ratios of tree properties under the coalescent
title_full Approximations to the expectations and variances of ratios of tree properties under the coalescent
title_fullStr Approximations to the expectations and variances of ratios of tree properties under the coalescent
title_full_unstemmed Approximations to the expectations and variances of ratios of tree properties under the coalescent
title_short Approximations to the expectations and variances of ratios of tree properties under the coalescent
title_sort approximations to the expectations and variances of ratios of tree properties under the coalescent
topic Investigation
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9526068/
https://www.ncbi.nlm.nih.gov/pubmed/35951748
http://dx.doi.org/10.1093/g3journal/jkac205
work_keys_str_mv AT lappoegor approximationstotheexpectationsandvariancesofratiosoftreepropertiesunderthecoalescent
AT rosenbergnoaha approximationstotheexpectationsandvariancesofratiosoftreepropertiesunderthecoalescent