Supplementary information
From the following article:
A haplotype map of the human genome
The International HapMap Consortium
Nature 437, 1299-1320 (27 October 2005)
doi:10.1038/nature04226
Supplementary Notes
This file contains Supplementary Methods, Supplementary Tables and Supplementary Figure Legends. Also contains a glossary and additional references.
Supplementary Figure 1
Completeness of SNP coverage by chromosome
Supplementary Figure 2
Distribution of inter-SNP distances.
Supplementary Figure 3
The probabilities that alleles are ancestral as a function of their frequency.
Supplementary Figure 4
Comparison of allele frequencies in the genome-wide HapMap data for all pairs of analysis panels and between the CHB and JPT samples.
Supplementary Figure 5
Haplotype sharing within and among populations.
Supplementary Figure 6
The decay of LD in chromosomes of different lengths.
Supplementary Figure 7
Comparison of LD and recombination for all the ENCODE regions.
Supplementary Figure 8
Regions with unusual haplotype structure.
Supplementary Figure 9
The cumulative frequency distribution of haplotype length for all non-redundant haplotypes with frequency of at least 5% in the combined sample.
Supplementary Figure 10
The number of proxy SNPs (r2 
0.8) as a function of MAF in the genome-wide Phase I HapMap.
Supplementary Figure 11
The proportion of all common SNPs in the ENCODE data captured by the simulated Phase I HapMap, as a function of the r2 value.
Supplementary Figure 12
Recombination rates and hotspots across the genome.
Supplementary Figure 13
Counts of THE1A and THE1B retrotransposon-like elements as a function of distance from hotspot centre.
Supplementary Figure 15
The joint distribution of relative local genetic diversity and excess of rare alleles.
Supplementary Figure 16
The distribution of derived allele frequencies across the genome by functional class.
Supplementary Figure 17
Total cumulative numbers of SNPs attempted in each analysis panel.
Supplementary Figure 18
The distribution of minor allele frequencies, by analysis panel.
Supplementary Figure 19
The distribution of inter-SNP distances, by centre and chromosome.
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