Supporting Information for Granka et al., 2012
Supporting Information
- Supporting Information - File S1, Figures S1-S18, and Tables S1-S4 (PDF, 369 KB)
- Figure S1 - Enrichment of genic and non-genic SNPs for values of |delta| between pairs of populations (PDF, 89 KB)
- Figure S2 - Enrichment of genic and non-genic SNPs for values of delta between selected pairs of populations (PDF, 127 KB)
- Figure S3 - Enrichment of genic and non-genic SNPs for values of delta between the HGDP Yoruba and HapMap Tuscans (PDF, 77 KB)
- Figure S4 - Extreme values of SNP differentiation over all SNPs vs. mean FST for all pairs of populations (PDF, 82 KB)
- Figure S5 - P-values for the 5 most extreme 100 kb genomic windows according to the iHS statistics in each population (PDF, 95 KB)
- Figure S6 - P-values for the 5 most extreme 100 kb genomic windows according to the XP-EHH CEU statistics in each population (PDF, 93 KB)
- Figure S7 - P-values for the 5 most extreme 100 kb genomic windows according to the XP-EHH YRI statistics in each population (PDF, 93 KB)
- Figure S8 - P-values for the 5 most extreme 100 kb genomic windows according to the XP-EHH KHB statistic in each population (PDF, 92 KB)
- Figure S9 - Number of shared 100 kb genomic windows in the top empirical 0.1% vs. mean FST for pairs of population (PDF, 83 KB)
- Figure S10 - Number of shared 100 kb genomic windows in the top empirical 1% vs. correlations of window statistics over all genomic windows for pairs of populations (PDF, 82 KB)
- Figure S11 - Correlations of window statistics over all 100 kb genomic windows vs. average Bantu ancestry for pairs of populations (PDF, 81 KB)
- Figure S12 - Demographic model simulated using msms (PDF, 88 KB)
- Figure S13 - Number of overlapping 100 kb windows in the empirical tails of XP-EHH for pairs of populations simulated under neutrality (PDF, 78 KB)
- Figure S14 - Number of overlapping 100 kb windows in the empirical tails of iHS for pairs of populations simulated under neutrality (PDF, 78 KB)
- Figure S15 - Number of overlapping 100 kb windows and true positive rate in the empirical tails of XP-EHH for pairs of populations simulated under recent selection (PDF, 79 KB)
- Figure S16 - Number of overlapping 100 kb windows and true positive rate in the empirical tails of iHS for pairs of populations simulated under recent selection (PDF, 79 KB)
- Figure S17 - Number of overlapping 100 kb windows and true positive rate in the empirical tails of XP-EHH for pairs of populations simulated under less recent selection (PDF, 79 KB)
- Figure S18 - Number of overlapping 100 kb windows and true positive rate in the empirical tails of iHS for pairs of populations simulated under less recent selection (PDF, 79 KB)
- File S1 - Supporting Methods and Results (PDF, 160 KB)
- Table S1 - Populations Analyzed (PDF, 84 KB)
- Table S2 - Mean FST values between pairs of populations (PDF, 83)
- Table S3 - Mantel correlations between matrices of the indicated variables for each haplotype statistics (PDF, 81 KB)
- Table S4 - Significantly enriched Gene Ontology (GO) terms in the top empirical 1% and 5% of windows in each population (PDF, 84 KB)