Complete Linkage Disequilibrium Test for Causative Mutations
Author Information
Author(s): Eivind Uleberg, Theo H.E. Meuwissen
Primary Institution: Norwegian University of Life Sciences
Hypothesis
Can the Complete Linkage Disequilibrium (CLD) test effectively identify causative SNPs underlying quantitative traits?
Conclusion
The CLD test can provide evidence for a causative SNP, but its power may be low in situations with closely linked markers.
Supporting Evidence
- The CLD test confirmed 280 causative SNP from 1000 simulations at a significance level of p = 0.05.
- In analysis I, a QTL was detected in 994 replicates when the causative SNP was included.
- The power of the CLD test was found to be between 23% and 28%.
Takeaway
This study created a test to find important genetic markers that cause traits in animals, but sometimes it might not work well if the markers are too close together.
Methodology
The CLD test involves two analyses: the first identifies potential QTLs, and the second compares the best SNPs to confirm causative SNPs.
Limitations
The power of the CLD test is relatively low, especially in the presence of closely linked markers.
Statistical Information
P-Value
0.001
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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