Table 3

SNPs identified for various cohorts using the stringent filter (Part 2).

Cohort(s)

SNP/identity

(degeneracy)

Chr: Pos. (hg17)

and orientation

Duplicon

length

Characterized genes and

pseudogenes in duplicons


CD

rs11060028

12:

128 M→

1.5 kb

GLT1D1

93.4% (P)

10:

102 M←

1.2 kb

[ABCC2]

T1D

rs3805006

3:

4,775 K→

402

ITPR1, [EGO]

93.4% (P)

3:

4,773 K←

407

ITPR1, [EGO]

BD, HT

rs9378249

6:

31.4 M→

27 kb

HLA-B, DHFRP2

92.9% (F)

6:

31.3 M→

35 kb

HLA-C

HT

rs841245

12:

27.1 M→

84 kb

-

92.0% (P)

12:

27.6 M→

82 kb

PPFIBP1

BD

rs12070036

1:

224 M→

9 kb

ZNF678

91.9%

12:

7 M←

3.5 kb

[PEX5]

91.1%

12:

123 M←

10 kb

[RILPL1], [TMED2]

90.9%

11:

26 M←

2.7 kb

-

RA

rs4988327

11:

68 M→

104 kb

LRP5

91.2%

22:

24 M←

64 kb

LRP5L

T2D

rs11010908

10:

37.2 M→

6 kb

-

90.6%

10:

27.2 M←

12 kb

-

90.0%

10:

27.6 M→

6 kb

-

CAD

rs295470

3:

141 M→

1.9 kb

ACTGP1, [RBP2]

89.5%

17:

77 M←

2.3 kb

ACTG1, [FSCN2]

89.1%

1:

92 M←

866

-

87.8%

X:

53 M←

636

-

86.6%

2:

108 M→

568

-

86.5%

17:

17 M→

696

[FLCN]

85.9%

3:

12 M→

1.9 kb

SYN2

BD, HT

rs2122231

3:

35 M→

4.9 kb

-

88.8%

6:

117.0 M→

4 kb

[NT5DC1]

88.6%

18:

5 M→

3.9 kb

-

88.5%

2:

194 M→

1 kb

-

87.9%

1:

96 M→

4.9 kb

-

87.3%

10:

117 M→

4.2 kb

-

86.3%

20:

24 M→

728

-

BD, HT

SNP_A-1948953

17:

17 M→

894

LNX1 pseudogene LOC644909

87.0% (P)

4:

54 M←

21 kb

LNX1

CD

rs9839841

3:

16 M→

110 kb

RFTN1

86.8% (F)

Y:

7.6 M→

100 kb

RFTN1-pseudogene LOC360015, [TTTY12], [TTTY16]

BD, T2D

rs4850057

2:

4 M→

4.7 kb

-

86.8%

9:

35 M→

4.5 kb

UNC13B

86.1%

11:

5 M→

3.0 kb

[TRIM68], [OR51D1], [OR51E1]


Ross BMC Medicine 2011 9:12   doi:10.1186/1741-7015-9-12

Open Data