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the claim

Conditional analysis of a SNP in a GWAS accounts for secondary association signals

the verdict
SUPPORTED
the evidence backs this
Recorded sources
4 sources for · 0 against

Counts group repeated records of the same source within each side. They do not measure evidence strength or source independence.

Is it true that conditional analysis of a SNP in a GWAS accounts for secondary association signals?

Yes. Conditional analysis of single nucleotide polymorphisms (SNPs) in genome-wide association studies (GWAS) is a well-established and successful method used to account for and identify secondary association signals.

Verdict: SUPPORTED · 4 sources for, 0 against · Last checked

The analysis

The claim states that conditional analysis of a SNP in a GWAS accounts for secondary association signals. Papers [2], [3], [5], and [9] all explicitly utilize or discuss conditional analysis as the primary method to detect, distinguish, and account for secondary/independent association signals at GWAS loci. Therefore, the evidence overwhelmingly supports the claim, resulting in a 'SUPPORTED' verdict.

Evidence for · 4
Colocalization of GWAS and eQTL signals at loci with multiple signals identifies additional candidate genes for body fat distribution.
2019
The study explicitly used conditional analysis to identify conditionally distinct or secondary eQTL signals at multi-signal GWAS loci.
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Wu, Y., Broadaway, K., Raulerson, C. K., Scott, L., Pan, C., Ko, A., He, A., Tilford, C., Fuchsberger, C., Fuchsberger, C., Locke, A., Locke, A., Stringham, H., Jackson, A., Narisu, N., Kuusisto, J., Pajukanta, P., Collins, F., Boehnke, M., Laakso, M., Lusis, A., Civelek, M., Civelek, M., & Mohlke, K. (2019). Colocalization of GWAS and eQTL signals at loci with multiple signals identifies additional candidate genes for body fat distribution.. doi.org. https://doi.org/10.1093/hmg/ddz263

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More for · 3
A mega-analysis of expression quantitative trait loci in retinal tissue
2020
A conditional analysis was utilized to reveal 744 independent secondary eQTL signals for 3,007 eGenes.
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Strunz, T., Kiel, C., Grassmann, F., Ratnapriya, R., Kwicklis, M., Karlstetter, M., Fauser, S., Arend, N., Swaroop, A., Langmann, T., Wolf, A., & Weber, B. (2020). A mega-analysis of expression quantitative trait loci in retinal tissue. doi.org. https://doi.org/10.1371/journal.pgen.1008934

GWAS of the electrocardiographic QT interval in Hispanics/Latinos generalizes previously identified loci and identifies population-specific signals
2017
Conditional analyses were applied to distinguish six secondary signals across multiple loci like NOS1AP and ATP1B1.
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Méndez-Giráldez, R., Gogarten, S., Below, J., Yao, J., Seyerle, A. A., Highland, H., Kooperberg, C., Soliman, E., Rotter, J., Kerr, K. F., Ryckman, K., Taylor, K., Petty, L., Shah, S. J., Conomos, M., Sotoodehnia, N., Cheng, S., Heckbert, S., Sofer, T., Guo, X., Whitsel, E., Lin, H. J., Hanis, C., Laurie, C., & Avery, C. (2017). GWAS of the electrocardiographic QT interval in Hispanics/Latinos generalizes previously identified loci and identifies population-specific signals. doi.org. https://doi.org/10.1038/s41598-017-17136-0

Assessment of significance of conditionally independent GWAS signals
2021
The paper notes that conditional analysis has been successful in identifying secondary signals among multiple independently associated SNPs within an LD region.
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Ghasemi, S., Teumer, A., Wuttke, M., & Becker, T. (2021). Assessment of significance of conditionally independent GWAS signals. doi.org. https://doi.org/10.1093/bioinformatics/btab332

Receipt History
first checked05 Aug 2026
judged → SUPPORTED · 8605 Aug 2026
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