The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
Reliable Detection of Loci Responsible for Local Adaptation: Inference of a Null Model through Trimming the Distribution of F ST
Abstract
Loci responsible for local adaptation are likely to have more genetic differentiation among populations than neutral loci. However, neutral loci can vary widely in their amount of genetic differentiation, even over the same geographic range. Unfortunately, the distribution of differentiation--as measured by an index such as F(ST)--depends on the details of the demographic history of the populations in question, even without spatially heterogeneous selection. Many methods designed to detect F(ST) outliers assume a specific model of demographic history, which can result in extremely high false positive rates for detecting loci under selection. We develop a new method that infers the distribution of F(ST) for loci unlikely to be strongly affected by spatially diversifying selection, using data on a large set of loci with unknown selective properties. Compared to previous methods, this approach, called OutFLANK, has much lower false positive rates and comparable power, as shown by simulation.
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Cites
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
Benjamini, Y., & Hochberg, Y. (1995) · Journal of the Royal Statistical Society Series B: Statistical Methodology · doi:10.1111/j.2517-6161.1995.tb02031.x · Cited by 109,482
Statistical significance for genomewide studies
Storey, J. D., & Tibshirani, R. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1530509100 · Cited by 9,692
Kofler, R., Pandey, R. V., & Schlötterer, C. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr589 · Cited by 815
Tracking footprints of artificial selection in the dog genome
Akey, J. M., Ruhe, A. L., Akey, D. T., Wong, A. K., Connelly, C. F., Madeoy, J., Nicholas, T. J., & Neff, M. W. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0909918107 · Cited by 350
Cited by
Finding the genomic basis of local adaptation: pitfalls, practical solutions, and future directions
Hoban, S., Kelley, J. L., Lotterhos, K. E., Antolin, M. F., Bradburd, G., Lowry, D. B., Poss, M. L., Reed, L. K., Storfer, A., & Whitlock, M. C. (2016) · The American Naturalist · doi:10.1086/688018 · Cited by 876
“A recent approach uses maximum likelihood to generate parameters of the F ST distribution in the absence of selection (Whitlock and Lotterhos 2015).”
Self-citationPopulation genomics for wildlife conservation and management
Hohenlohe, P. A., Funk, W. C., & Rajora, O. P. (2021) · Molecular Ecology · doi:10.1111/mec.15720 · Cited by 702
A beginner's guide to low‐coverage whole genome sequencing for population genomics
Lou, R. N., Jacobs, A., Wilder, A. P., & Therkildsen, N. O. (2021) · Molecular Ecology · doi:10.1111/mec.16077 · Cited by 334
Next-generation data filtering in the genomics era
Hemstrom, W., Grummer, J. A., Luikart, G., & Christie, M. R. (2024) · Nature Reviews Genetics · doi:10.1038/s41576-024-00738-6 · Cited by 77
Background selection and F ST : Consequences for detecting local adaptation
Matthey‐Doret, R., & Whitlock, M. C. (2019) · Molecular Ecology · doi:10.1111/mec.15197 · Cited by 73
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Metadata
- Authors
- Whitlock, M. C., & Lotterhos, K. E.
- Venue
- The American Naturalist
- Publisher
- University of Chicago Press
- Published
- 2015-10
- Volume
- 186
- Issue
- S1
- Pages
- S24-S36
- ISSN
- 0003-0147 (ISSN-L)
- 1537-5323
- OpenAlex
- W2227589155
- Cited by
- 520
- References
- 4
- FWCI
- 17.89
- Type
- journal article
- Language
- en
- Open access
- closed
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