Document Detail


A maximum likelihood method for estimating genome length using genetic linkage data.
MedLine Citation:
PMID:  2060775     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
The genetic length of a genome, in units of Morgans or centimorgans, is a fundamental characteristic of an organism. We propose a maximum likelihood method for estimating this quantity from counts of recombinants and nonrecombinants between marker locus pairs studied from a backcross linkage experiment, assuming no interference and equal chromosome lengths. This method allows the calculation of the standard deviation of the estimate and a confidence interval containing the estimate. Computer simulations have been performed to evaluate and compare the accuracy of the maximum likelihood method and a previously suggested method-of-moments estimator. Specifically, we have investigated the effects of the number of meioses, the number of marker loci, and variation in the genetic lengths of individual chromosomes on the estimate. The effect of missing data, obtained when the results of two separate linkage studies with a fraction of marker loci in common are pooled, is also investigated. The maximum likelihood estimator, in contrast to the method-of-moments estimator, is relatively insensitive to violation of the assumptions made during analysis and is the method of choice. The various methods are compared by application to partial linkage data from Xiphophorus.
Authors:
A Chakravarti; L K Lasher; J E Reefer
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Publication Detail:
Type:  Journal Article; Research Support, U.S. Gov't, P.H.S.    
Journal Detail:
Title:  Genetics     Volume:  128     ISSN:  0016-6731     ISO Abbreviation:  Genetics     Publication Date:  1991 May 
Date Detail:
Created Date:  1991-08-05     Completed Date:  1991-08-05     Revised Date:  2009-11-18    
Medline Journal Info:
Nlm Unique ID:  0374636     Medline TA:  Genetics     Country:  UNITED STATES    
Other Details:
Languages:  eng     Pagination:  175-82     Citation Subset:  IM    
Affiliation:
Department of Human Genetics, University of Pittsburgh, Pennsylvania 15261.
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MeSH Terms
Descriptor/Qualifier:
Animals
Chromosomes
Computer Simulation
Crosses, Genetic
Cyprinodontiformes / genetics
Evaluation Studies as Topic
Genetic Techniques*
Genomic Library*
Linkage (Genetics)
Monte Carlo Method
Recombination, Genetic
Statistics as Topic
Grant Support
ID/Acronym/Agency:
GM33771/GM/NIGMS NIH HHS; HD00774/HD/NICHD NIH HHS; U41 RR04154/RR/NCRR NIH HHS
Comments/Corrections

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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