A principal-components-based clustering method to identify multiple variants associated with rheumatoid arthritis and arthritis-related autoantibodies

Table 4 Cluster associations with RFUW

Cluster No.	SNP	Position^a	MAF	R_O^2b	R_N^2c	(1-R_O²)/(1-R_N²) Ratio	p-Value^d
2	rs2844670	31,113,705	0.152	0.811	0.488	0.370	0.0004
	rs3130933	31,240,064	0.133	0.945	0.522	0.116
	rs3094609	31,273,545	0.145	0.954	0.542	0.101
	rs3130532	31,316,432	0.142	0.956	0.531	0.094
	rs7382297	31,355,046	0.142	0.953	0.530	0.100
	rs2905722	31,557,306	0.139	0.747	0.614	0.656
5	rs11967684	31,307,745	0.353	0.822	0.628	0.477	0.0004
	rs9468925	31,366,816	0.353	0.902	0.464	0.183
	rs3873379	31,370,148	0.290	0.876	0.478	0.237
	rs3873380	31,370,417	0.303	0.938	0.499	0.124
	rs9366778	31,377,152	0.387	0.750	0.517	0.518
	rs3873386	31,381,724	0.374	0.852	0.514	0.305
20	rs12177980	32,794,062	0.447	0.888	0.443	0.202	0.0003
	rs9461799	32,797,507	0.447	0.888	0.443	0.202
	rs13199787	32,813,254	0.449	0.882	0.436	0.209
	rs10807113	32,830,164	0.462	0.890	0.471	0.209
	rs7756516	32,831,895	0.462	0.890	0.471	0.209
	rs2301271	32,833,171	0.413	0.856	0.427	0.251
	rs7453920	32,837,990	0.413	0.856	0.425	0.250
	rs6903130	32,840,188	0.495	0.820	0.369	0.286
	rs6901084	32,844,914	0.469	0.890	0.432	0.194
24	rs9468841	30,933,266	0.076	0.570	0.146	0.504	0.0007
	rs7756521	30,956,232	0.178	0.888	0.360	0.175
	rs3873334	31,004,126	0.167	0.929	0.336	0.107
	rs12697941	31,012,693	0.152	0.928	0.302	0.104
	rs3757340	31,029,861	0.270	0.554	0.307	0.644
183	rs3868542	31,253,818	0.370	0.772	0.366	0.360	0.0001
	rs887464	31,253,899	0.431	0.709	0.276	0.402
	rs4122189	31,275,906	0.233	0.795	0.556	0.462

^aBased on HapMap Data Release 23a (Phase II), NCBI Build 36, dbSNP Build 126
^bSquared correlation coefficient between a given SNP and its own cluster
^cThe next highest squared correlation coefficient between a given SNP and any other cluster
^dp-Value from 1 df Wald χ² for association with outcome, adjusted for all other clusters in the model

ISSN: 1753-6561