Article
Identifying lineage effects when controlling for population structure improves power in bacterial association studies.
Nature microbiology - 4 Apr 2016
Earle Sarah G, Wu Chieh-Hsi, Charlesworth Jane, Stoesser Nicole, Gordon N Claire, Walker Timothy M, Spencer Chris C A, Iqbal Zamin, Clifton David A, Hopkins Katie L, Woodford Neil, Smith E Grace, Ismail Nazir, Llewelyn Martin J, Peto Tim E, Crook Derrick W, McVean Gil, Walker A Sarah, Wilson Daniel J
Abstract excerpt
Bacteria pose unique challenges for genome-wide association studies because of strong structuring into distinct strains and substantial linkage disequilibrium across the genome(1,2). Although methods developed for human studies can correct for strain structure(3,4), this risks considerable loss-of-power because genetic differences between strains often contribute substantial phenotypic variability(5). Here, we...
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