All polymorphisms studied in this paper [PMID: 17135225] , total : 12 polymorphisms

Title : The 620W allele is the PTPN22 genetic variant conferring susceptibility to RA in a Dutch population.

Abstract : OBJECTIVES: A missense SNP, C1858T, in PTPN22 has been identified as a genetic risk factor for rheumatoid arthritis (RA). Subsequent work has suggested that other variants in this gene, in particular a haplotype marked by the minor allele of rs3789604, are associated with RA in white North Americans independent of C1858T. We tested this hypothesis in an independent white Dutch study. METHODS: A total of 667 RA patients and 286 controls were genotyped for 13 PTPN22 single nucleotide polymorphisms (SNPs) by allele-specific kinetic polymerase chain reaction. rs3789604 was genotyped in an additional 410 RA and 270 UA patients participating in the Leiden early arthritis inception cohort. We conducted single-marker and haplotype association tests. RESULTS: The sole haplotype strongly associated with RA in our Dutch population carries the PTPN22 1858T allele. A second haplotype identical at all other SNPs tested except 1858 was not associated with disease. No significant association of the haplotype tagged by the 3' PTPN22 SNP, rs3789604, with RA susceptibility (P = 0.134) was observed in our sample set. CONCLUSION: We conclude that C1858T is the sole PTPN22 variant predisposing to RA in our white Dutch sample set.

Author : Wesoly J,Hu X,Thabet MM,Chang M,Uh H,Allaart CF,Toes RE,Houwing-Duistermaat JJ,Begovich AB,Huizinga TW,

Source : Rheumatology (Oxford). 2007 Apr;46(4):617-21. Epub 2006 Nov 29.

No.	Polymorphism name	Gene Symbol	Entrez Gene ID
1	rs1217414	PTPN22	26191
2	rs2488458	PTPN22	26191
3	rs12760457	PTPN22	26191
4	rs11102685	PTPN22	26191
5	rs12730735	PTPN22	26191
6	rs2476601	PTPN22	26191
7	rs38346944	NA	NA
8	rs1310182	PTPN22	26191
9	rs38346943	NA	NA
10	rs1217413	PTPN22	26191
11	rs3811021	PTPN22	26191
12	rs3789604	RSBN1	54665