Exploiting large scale computing to construct high resolution linkage disequilibrium maps of the human genome

Winston Lau, Tai-Yue Kuo, William Tapper, Simon J. Cox, Andrew Collins

Abstract: Summary: Linkage disequilibrium (LD) maps increase power and precision in association mapping, define optimal marker spacing and identify recombination hot-spots and regions influenced by natural selection. Phase II of HapMap provides ∼2.8-fold more single nucleotide polymorphisms (SNPs) than phase I for constructing higher resolution maps. LDMAP-cluster, is a parallel program for rapid map construction in a Linux environment used here to construct genome-wide LD maps with >8.2 million SNPs from the phase II data.