Table 1 Identification of proteins binding to rs117701653 SNP by FREP

From: Non-coding autoimmune risk variant defines role for ICOS in T peripheral helper cell development

Identified

Molecular

Peptide count

protein

weight

Bio-rs1177

Bio-rs1177 + Competitor

Bio-Ctrl

ALB

69 kDa

14

26

23

PARP1

113 kDa

14

17

26

DST

861 kDa

3

1

6

RYR1

565 kDa

3

1

2

H3BNH8

10 kDa

3

0

0

ACACB

277 kDa

3

0

1

SMCHD1

226 kDa

3

0

0

SYNE1

1011 kDa

2

0

5

DYNC1H1

532 kDa

2

1

3

GOLGB1

376 kDa

2

0

4

SF3B1

146 kDa

2

0

3

TOP1

91 kDa

1

3

1

SMG1

410 kDa

1

0

4

ROCK1

158 kDa

1

0

3

SPEN

402 kDa

1

0

3

  1. Flanking restriction enhanced pulldown (FREP) was performed using biotinylated (Bio-rs1177) or non-biotinylated (Competitor) DNA fragment containing C-allele of rs117701653 SNP. Biotinylated DNA fragment of irrelevant sequence (Bio-Ctrl) was used as a negative control. Peptides were analyzed by mass spectrometry, identifying 43 proteins (Supplementary Table 1). 15 proteins with more than one peptide fragment in Bio-rs1177 are listed. Bolded H3BNH8 and SMCHD1 indicate selective binding to rs117701653.
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