Can the Site-Frequency Spectrum Distinguish Exponential Population Growth from Multiple-Merger Coalescents?
- Publication type:
- Journal article
- Metadata:
-
- Autoren
- Bjarki Eldon
- Matthias Birkner
- Jochen Blath
- Fabian Freund
- Autoren-URL
- https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=fis-test-1&SrcAuth=WosAPI&KeyUT=WOS:000350733900018&DestLinkType=FullRecord&DestApp=WOS_CPL
- DOI
- 10.1534/genetics.114.173807
- eISSN
- 1943-2631
- Externe Identifier
- Clarivate Analytics Document Solution ID: CD0BA
- PubMed Identifier: 25575536
- ISSN
- 0016-6731
- Ausgabe der Veröffentlichung
- 3
- Zeitschrift
- GENETICS
- Schlüsselwörter
- coalescent
- multiple mergers
- population growth
- approximate maximum likelihood test
- approximate Bayesian computation
- sitefrequency spectrum
- Paginierung
- 841 - +
- Datum der Veröffentlichung
- 2015
- Status
- Published
- Titel
- Can the Site-Frequency Spectrum Distinguish Exponential Population Growth from Multiple-Merger Coalescents?
- Sub types
- Article
- Ausgabe der Zeitschrift
- 199
Data source: Web of Science (Lite)
- Other metadata sources:
-
- Abstract
- <jats:title>Abstract</jats:title><jats:p>The ability of the site-frequency spectrum (SFS) to reflect the particularities of gene genealogies exhibiting multiple mergers of ancestral lines as opposed to those obtained in the presence of population growth is our focus. An excess of singletons is a well-known characteristic of both population growth and multiple mergers. Other aspects of the SFS, in particular, the weight of the right tail, are, however, affected in specific ways by the two model classes. Using an approximate likelihood method and minimum-distance statistics, our estimates of statistical power indicate that exponential and algebraic growth can indeed be distinguished from multiple-merger coalescents, even for moderate sample sizes, if the number of segregating sites is high enough. A normalized version of the SFS (nSFS) is also used as a summary statistic in an approximate Bayesian computation (ABC) approach. The results give further positive evidence as to the general eligibility of the SFS to distinguish between the different histories.</jats:p>
- Autoren
- Bjarki Eldon
- Matthias Birkner
- Jochen Blath
- Fabian Freund
- DOI
- 10.1534/genetics.114.173807
- eISSN
- 1943-2631
- Ausgabe der Veröffentlichung
- 3
- Zeitschrift
- Genetics
- Sprache
- en
- Online publication date
- 2015
- Paginierung
- 841 - 856
- Datum der Veröffentlichung
- 2015
- Status
- Published
- Herausgeber
- Oxford University Press (OUP)
- Herausgeber URL
- http://dx.doi.org/10.1534/genetics.114.173807
- Datum der Datenerfassung
- 2023
- Titel
- Can the Site-Frequency Spectrum Distinguish Exponential Population Growth from Multiple-Merger Coalescents?
- Ausgabe der Zeitschrift
- 199
Data source: Crossref
- Abstract
- The ability of the site-frequency spectrum (SFS) to reflect the particularities of gene genealogies exhibiting multiple mergers of ancestral lines as opposed to those obtained in the presence of population growth is our focus. An excess of singletons is a well-known characteristic of both population growth and multiple mergers. Other aspects of the SFS, in particular, the weight of the right tail, are, however, affected in specific ways by the two model classes. Using an approximate likelihood method and minimum-distance statistics, our estimates of statistical power indicate that exponential and algebraic growth can indeed be distinguished from multiple-merger coalescents, even for moderate sample sizes, if the number of segregating sites is high enough. A normalized version of the SFS (nSFS) is also used as a summary statistic in an approximate Bayesian computation (ABC) approach. The results give further positive evidence as to the general eligibility of the SFS to distinguish between the different histories.
- Addresses
- TU Berlin, Institut für Mathematik, 10623 Berlin, Germany eldon@math.tu-berlin.de.
- Autoren
- Bjarki Eldon
- Matthias Birkner
- Jochen Blath
- Fabian Freund
- DOI
- 10.1534/genetics.114.173807
- eISSN
- 1943-2631
- Externe Identifier
- PubMed Identifier: 25575536
- PubMed Central ID: PMC4349076
- Open access
- false
- ISSN
- 0016-6731
- Ausgabe der Veröffentlichung
- 3
- Zeitschrift
- Genetics
- Schlüsselwörter
- Likelihood Functions
- Bayes Theorem
- Genetics, Population
- Population Growth
- Models, Genetic
- Sprache
- eng
- Medium
- Print-Electronic
- Online publication date
- 2015
- Paginierung
- 841 - 856
- Datum der Veröffentlichung
- 2015
- Status
- Published
- Datum der Datenerfassung
- 2015
- Titel
- Can the site-frequency spectrum distinguish exponential population growth from multiple-merger coalescents?
- Sub types
- Research Support, Non-U.S. Gov't
- research-article
- Journal Article
- Ausgabe der Zeitschrift
- 199
Files
https://www.genetics.org/content/genetics/199/3/841.full.pdf https://europepmc.org/articles/PMC4349076?pdf=render
Data source: Europe PubMed Central
- Abstract
- The ability of the site-frequency spectrum (SFS) to reflect the particularities of gene genealogies exhibiting multiple mergers of ancestral lines as opposed to those obtained in the presence of population growth is our focus. An excess of singletons is a well-known characteristic of both population growth and multiple mergers. Other aspects of the SFS, in particular, the weight of the right tail, are, however, affected in specific ways by the two model classes. Using an approximate likelihood method and minimum-distance statistics, our estimates of statistical power indicate that exponential and algebraic growth can indeed be distinguished from multiple-merger coalescents, even for moderate sample sizes, if the number of segregating sites is high enough. A normalized version of the SFS (nSFS) is also used as a summary statistic in an approximate Bayesian computation (ABC) approach. The results give further positive evidence as to the general eligibility of the SFS to distinguish between the different histories.
- Autoren
- Bjarki Eldon
- Matthias Birkner
- Jochen Blath
- Fabian Freund
- Autoren-URL
- https://www.ncbi.nlm.nih.gov/pubmed/25575536
- DOI
- 10.1534/genetics.114.173807
- eISSN
- 1943-2631
- Externe Identifier
- PubMed Central ID: PMC4349076
- Ausgabe der Veröffentlichung
- 3
- Zeitschrift
- Genetics
- Schlüsselwörter
- approximate Bayesian computation
- approximate maximum likelihood test
- coalescent
- multiple mergers
- population growth
- site-frequency spectrum
- Bayes Theorem
- Genetics, Population
- Likelihood Functions
- Models, Genetic
- Population Growth
- Sprache
- eng
- Country
- United States
- Paginierung
- 841 - 856
- PII
- genetics.114.173807
- Datum der Veröffentlichung
- 2015
- Status
- Published
- Datum, an dem der Datensatz öffentlich gemacht wurde
- 2015
- Titel
- Can the site-frequency spectrum distinguish exponential population growth from multiple-merger coalescents?
- Sub types
- Journal Article
- Research Support, Non-U.S. Gov't
- Ausgabe der Zeitschrift
- 199
Data source: PubMed
- Beziehungen:
- Property of