An Integrated Approach Providing Exact SNP IDs from Sequences
Most of the polymorphisms among genomes are single nucleotide polymorphisms (SNPs). An SNP is a variation of the DNA sequence caused by the change of one nucleotide by another, or insertion or deletion of one or more nucleotides. SNPs provide useful information for personalized medicine [1, 2]. Although many methodologies are reported or reviewed for genetic association studies [3–5], most of the previously reported SNPs are written in nucleotide/amino acid position formats without providing an SNP ID. For example, C1772T and G1790A SNPs in exon 12 of the HIF gene are found to be associated with the renal cell carcinoma phenotype , and TNF gene polymorphisms for three SNPs in the TNF gene, at positions –857, –863, and –1031, are reported to be associated with osteoporosis . This anonymous SNP makes the associated SNPs hard to be analyzed or organized systemically.
KeywordsQuery Sequence Genetic Association Study Dynamic Programming Method Discriminable Criterion Single Nucleotide Polymorphism Mapping
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