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Testing the correspondence between map positions of quantitative trait loci

Published online by Cambridge University Press:  01 December 1999

PETER D. KEIGHTLEY  and
SARA A. KNOTT
PETER D. KEIGHTLEY
Affiliation:
Institute of Cell, Animal and Population Biology, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, UK
SARA A. KNOTT
Affiliation:
Institute of Cell, Animal and Population Biology, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, UK
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Abstract

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There are several instances in which quantitative trait locus (QTL) mapping experiments have been independently carried out for similar traits in different laboratories. We develop a permutation test of the correspondence between the test statistics obtained from genome-wide QTL scans in two such experiments to test whether the same QTLs are segregating in the experimental pair. In simulations, we show that the permutation test has the desired properties if chromosomes are of equal length, but bias can occur if chromosomes are of unequal length, a problem connected with autocorrelation of test statistic values. We apply the test to data from three recent mouse body weight QTL mapping experiments. The results from the test are non-significant, and imply a lack of overall concordance between the QTLs that were segregating in these experiments.

Type
Research Article
Information
Genetics Research , Volume 74 , Issue 3 , December 1999 , pp. 323 - 328
Copyright
1999 Cambridge University Press