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Revival of a well-known, but ignored correction term for χ2 in linkage analysis with small samples (1998)

HÜHN, M.

Oxford, UK : Blackwell Publishing Ltd

Plant breeding 117 (1998), S. 0

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ISSN: 1439-0523

Source: Blackwell Publishing Journal Backfiles 1879-2005

Topics: Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition

Notes: The ‘classical’χ2 test is routinely applied in linkage analysis. The values customarily used, however, are only approximations since continuous χ2 terms are used instead of discrete multinomial terms. This error becomes increasingly important as the sample becomes small. In this note, a well-known correction term for improvement of this approximation is revived and numerically calculated for some interesting cases from linkage studies.

Type of Medium: Electronic Resource

URL: http://dx.doi.org/10.1111/j.1439-0523.1998.tb01456.x

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Determining the linkage of disease-resistance genes to molecular markers: the LOD-SCORE method revisited with regard to necessary sample sizes (1995)

Hühn, M.

Springer

Theoretical and applied genetics 90 (1995), S. 841-846

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ISSN: 1432-2242

Keywords: Linkage analysis ; Disease resistance ; Molecular markers ; Lod-score method ; Sample size

Source: Springer Online Journal Archives 1860-2000

Topics: Biology

Notes: Abstract Some approaches to molecular marker-assisted linkage detection for a dominant disease-resistance trait based on a segregating F2 population are discussed. Analysis of two-point linkage is carried out by the traditional measure of maximum lod score. It depends on (1) the maximum-likelihood estimate of the recombination fraction between the marker and the disease-resistance gene locus, (2) the observed absolute frequencies, and (3) the unknown number of tested individuals. If one replaces the absolute frequencies by expressions depending on the unknown sample size and the maximum-likelihood estimate of recombination value, the conventional rule for significant linkage (maximum lod score exceeds a given linkage threshold) can be resolved for the sample size. For each sub-population used for linkage analysis [susceptible (= recessive) individuals, resistant (= dominant) individuals, complete F2] this approach gives a lower bound for the necessary number of individuals required for the detection of significant two-point linkage by the lod-score method.