15. Mapping and Characterizing QTL: Inbred Line Crosses

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Updated notes

  1. Comments (and corrections) on our discussion on pages 441-442 of the Bonferroni correction from Stan Sawyer (Washington University St.Louis).

  2. Updated reference: on F2:3 designs (p432) we give Fisch, Ragot and Gay (1996) as a reference. Stephanie Monks (Univ. Washington) reminded us that this was generalized and improved (as far as probability calculation of the QTL genotypes) by Jiang, C. and Z.-B. Zeng (1997) Mapping quantitative trait loci with dominant and missing markers in various crosses from two inbred lines. Genetica 101:47-58. A copy of the article and the abstract is available from Zhao-Bang's website.

  3. Summary table and figures (pdf file) of roughly 100 QTL mapping experiments using inbred line crosses. These were used to generate figures 15.13 and 15.14.

  4. LOD scores (pg. 447-448) where original introduced by Barnard (1949 J. R. Stat. Soc B 11:116-139). We introduce them in the book as log of the likelihood ratio, which is also sometimes called the backwards lod. They are also introduced as the ratio of two probabilities, and this is called the Forward lod. See Elston (1997, American Journal of Human Genetics 60:255-262) for further discussion. [Thanks to Bruce Southey, Iowa State]

Tests of Associations between QTLs detected in different experiments and QTL-Candidate locus associations

(Posted 13 May 1999)

Background: As more QTL mapping studies appear, attempts are being made to ascertain whether the same QTLs are being detected in different experiments. A related issue is testing whether mapped QTLs are nonrandomly associated with the map positions of candidate loci. Resampling tests provide a nice approach to testing for significance.

Some recent references

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Created 25 February 1995, last updated 14 April 2003

Bruce Walsh. jbwalsh@u.arizona.edu . Comments welcome.