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The aim of this study was to investigate the association of single nucleotide polymorphisms (SNPs) in tissue non-specific alkaline phosphatase (TNAP) with ankylosing spondylitis (AS) in the Chinese Han population.We carried out both case-control studies in 2 independent Chinese AS cohorts (Eastern Chinese, Southeastern Chinese) involving 353 AS patients and 514 unrelated healthy controls and family-based association study involving 57 pedigrees.