| Literature DB >> 20057905 |
Jutaro Nakamura1, Akira Meguro, Masao Ota, Eiichi Nomura, Tadayuki Nishide, Kenji Kashiwagi, Fumihiko Mabuchi, Hiroyuki Iijima, Kazuhide Kawase, Tetsuya Yamamoto, Makoto Nakamura, Akira Negi, Takeshi Sagara, Teruo Nishida, Masaru Inatani, Hidenobu Tanihara, Makoto Aihara, Makoto Araie, Takeo Fukuchi, Haruki Abe, Tomomi Higashide, Kazuhisa Sugiyama, Takashi Kanamoto, Yoshiaki Kiuchi, Aiko Iwase, Shigeaki Ohno, Hidetoshi Inoko, Nobuhisa Mizuki.
Abstract
PURPOSE: Toll-like receptor 2 (TLR2) is a transmembrane receptor that mediates immune responses to exogenous and endogenous ligands, and interacts with heat-shock proteins, which are reportedly involved in normal tension glaucoma (NTG). We investigated whether TLR2 polymorphisms are associated with NTG.Entities:
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Year: 2009 PMID: 20057905 PMCID: PMC2802293
Source DB: PubMed Journal: Mol Vis ISSN: 1090-0535 Impact factor: 2.367
Allele frequencies of SNPs of TLR2 among NTG patients and controls.
| A/G | 154,827,903 | Intron | 193 (48.3) | 122 (47.7) | 0.881 | |
| C/A | 154,841,396 | Intron | 187 (46.8) | 119 (46.5) | 0.947 | |
| T/C | 154,844,106 | Exon | 124 (31.0) | 71 (27.7) | 0.372 | |
| T/C, | 154,844,859 | Exon | 115 (28.8) | 63 (24.6) | 0.245 | |
| G/T | 154,847,105 | 3’UTR | 180 (45.0) | 108 (42.2) | 0.479 | |
In the "Alleles" column, 1 indicates the major allele and 2 indicates the minor allele. Position is distance from short arm telomere. bp, base pairs. p-values were caluculated by χ2 test 2×2 contingency table.
Figure 1A: Linkage disequilibrium plot of five SNPs of the TLR2 gene in NTG patients and controls. A schematic of TLR2 is shown as a black line, with boxes representing its three exons. The locations of the selected SNPs are indicated by the dotted lines. The D’ value corresponding to each SNP pair is expressed as a percentage and shown within the respective square. Higher D’ values are indicated in brighter red. B: Haplotype structure and diversity of TLR2. Common haplotypes of the two blocks are listed. Haplotype frequencies observed in NTG patients and controls are given in parentheses. The line thickness reflects the frequency of adjacent block haplotype distribution (thick lines, >10%; thin lines, 1%–10%).
Haplotype frequencies of tag SNPs of TLR2 among NTG patients and controls.
| Block 1 (tag SNPs | ||||
| AC | 51.8 | 52.3 | 0.88 | |
| GA | 46.8 | 46.5 | 0.95 | |
| GC | 1.5 | 1.2 | 0.72 | |
| Block 2 (tag SNPs | ||||
| TTT | 44.3 | 41.7 | 0.50 | |
| CCG | 29.4 | 24.1 | 0.14 | |
| TTG | 24.4 | 30.6 | 0.081 | |
| CTG | 1.0 | 3.1 | 0.047 | 0.19 |
| Block 1+2 (tag SNPs | ||||
| GATTG | 22.9 | 29.0 | 0.081 | |
| ACCCG | 26.6 | 21.2 | 0.12 | |
| ACTTT | 22.2 | 26.0 | 0.25 | |
| GATTT | 22.1 | 15.7 | 0.043 | 0.34 |
| ACCTG | 1.0 | 3.1 | 0.044 | 0.35 |
| GACCG | 1.7 | 1.8 | 0.93 | |
| ACTTG | 1.0 | 1.4 | | |
| GCCCG | 1.0 | 1.2 | 0.83 | |
Haplotypes with frequency less than 1% are not listed. p values were caluculated by χ2 test 2×2 contingency table. We corrected these p values (Pc) for multiple testing by Bonferoni's correction.