Comparison of LODPAL and GENEFINDER for Linkage Analysis
Author Information
Author(s): Hsu Fang-Chi, Hetmanski Jacqueline B, Li Lan, Markakis Diane, Jacobs Kevin, Shugart Yin Yao
Primary Institution: Wake Forest University School of Medicine
Hypothesis
How do the software packages LODPAL and GENEFINDER compare in their ability to detect genetic linkage for systolic blood pressure?
Conclusion
LODPA provided better power to detect linkage compared to GENEFINDER, but both programs had high false positive rates.
Supporting Evidence
- Using LODPAL, the power of detecting one of the three major genes related to SBP is 44.4%.
- The power of GENEFINDER is lower than that of LODPAL at 22.2%.
- After adjusting for total cholesterol, both programs showed a high number of false positives.
Takeaway
The study looked at two computer programs that help find genes related to blood pressure. One program was better at finding these genes, but both made mistakes.
Methodology
The study used simulated data sets from Genetic Analysis Workshop 13 to compare the performance of LODPAL and GENEFINDER in detecting linkage for systolic blood pressure.
Potential Biases
The addition of covariates increased the risk of false positives.
Limitations
The comparison was limited and both software packages produced a high number of false positives.
Participant Demographics
The study involved 330 families with a total of 4692 individuals.
Statistical Information
P-Value
0.0013
Confidence Interval
(181.7, 203.1)
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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