NARD: whole-genome reference panel of 1779 Northeast Asians improves imputation accuracy of rare and low-frequency variants

Table 1 Total number of variants in 1779 individuals by MAF and functional category

Type	Frequency^a	Number of variants	Functional variation
			Protein coding region				Non-coding region
			Silent/nonframeshift	Missense/frameshift	Stoploss/Stopgain	Unknown	Intronic	Intergenic	Splicing	UTR	ncRNA
SNP	Singleton	17,811,366	86,804	146,480	3722	2690	6,842,300	9,370,754	2110	247,422	1,109,084
	Rare	13,673,626	54,642	87,791	1658	1917	5,270,353	7,248,270	1363	164,492	843,140
	Low	3,430,315	12,753	15,710	232	428	1,299,727	1,851,373	245	38,673	211,174
	Common	5,727,339	17,886	15,981	151	729	2,049,372	3,228,994	159	53,221	360,846
	Total	40,642,646	172,085	265,962	5763	5764	15,461,752	21,699,391	3877	503,808	2,524,244
Indel	Singleton	1,402,707	3191	5068	157	129	558,772	717,182	517	27,748	89,943
	Rare	1,376,996	2733	2884	127	127	544,183	717,045	217	22,047	87,633
	Low	452,337	634	827	37	37	173,946	241,506	61	6444	28,845
	Common	569,436	422	369	18	89	207,132	317,135	145	7157	36,969
	Total	3,801,476	6980	9148	339	382	1,484,033	1,992,868	940	63,396	243,390