Single nucleotide polymorphism mapping using genome-wide unique sequences.
As more and more genomic DNAs are sequenced to characterize human genetic variations, the demand for a very fast and accurate method to genomically position these DNA sequences is high. We have developed a new mapping method that does not require sequence alignment. In this method, we first identified DNA fragments of 15 bp in length that are unique in the human genome and then used them to position single nucleotide polymorphism (SNP) sequences. By use of four desktop personal computers with AMD K7 (1 GHz) processors, our new method mapped more than 1.6 million SNP sequences in 20 hr and achieved a very good agreement with mapping results from alignment-based methods.
Chen
Leslie Y Y
LY
Institute of Biomedical Sciences, Academia Sinica, Taipei 11529, Taiwan.
Lu
Szu-Hsien
SH
Shih
Edward S C
ES
Hwang
Ming-Jing
MJ
D002874:Chromosome Mapping / Q000379:methods*; D030541:Databases, Genetic; D005819:Genetic Markers / Q000235:genetics; D014644:Genetic Variation / Q000235:genetics; D015894:Genome, Human; D006801:Humans; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*
D005819:Genetic Markers