| Literature DB >> 16515697 |
Jacob L McCauley1, Daniel W Hahs, Lan Jiang, William K Scott, Kathleen A Welsh-Bohmer, Charles E Jackson, Jeffery M Vance, Margaret A Pericak-Vance, Jonathan L Haines.
Abstract
BACKGROUND: Population heterogeneity may be a significant confounding factor hampering detection and verification of late onset Alzheimer's disease (LOAD) susceptibility genes. The Amish communities located in Indiana and Ohio are relatively isolated populations that may have increased power to detect disease susceptibility genes.Entities:
Mesh:
Year: 2006 PMID: 16515697 PMCID: PMC1448207 DOI: 10.1186/1471-2350-7-19
Source DB: PubMed Journal: BMC Med Genet ISSN: 1471-2350 Impact factor: 2.103
Comparison of Allele and Genotype frequencies for D5S211 in dementia cases and controls
| Allele counts | |||
| Alleles | Cases | Controls | Totals |
| 186 | 2 | 0 | 2 |
| 192 | 4 | 8 | 12 |
| 196 | 2 | 4 | 6 |
| 198 | 1 | 1 | 2 |
| 20 | |||
| 206 | 1 | 1 | 2 |
| 202 | 0 | 6 | 6 |
| 204 | 0 | 4 | 4 |
| Totals | 26 | 28 | 54 |
| Genotype counts | |||
| Genotypes | Cases | Controls | Totals |
| 186/200 | 2 | 0 | 2 |
| 192/192 | 0 | 3 | 3 |
| 192/196 | 0 | 1 | 1 |
| 192/200 | 4 | 0 | 4 |
| 192/206 | 0 | 1 | 1 |
| 196/198 | 0 | 1 | 1 |
| 196/200 | 2 | 1 | 3 |
| 196/202 | 0 | 1 | 1 |
| 198/206 | 1 | 0 | 1 |
| 200/200 | 4 | 0 | 4 |
| 200/202 | 0 | 3 | 3 |
| 200/204 | 0 | 2 | 2 |
| 204/204 | 0 | 1 | 1 |
| Totals | 13 | 14 | 27 |
Bold highlights allele demonstrating greatest difference
Microsatellite markers demonstrating nominally significant (p ≤ 0.05) empiric p-values for allele and genotype frequency differences between dementia cases and controls. Microsatellite markers in close proximity to those demonstrating significance in this study and found to be either linked (lod ≥ 1) or associated (p ≤ 0.05) in previous studies are also listed.
| Chromosome | Map Position (cM) | Mb Location | Marker | Fisher's Exact p-value | Empiric p-value | Max Lod Score | Study | ||
| 1 | 25 | 11.4 | D1S2667 | 0.162 | 0.007 | 0.170 | 0.015 | ||
| 1 | 64 | 32.1 | D1S396 | 0.043 | 0.449 | 0.050 | 0.407 | ||
| 2 | 38 | 17.4 | D2S1360 | 0.028 | 0.243 | 0.035 | 0.228 | ||
| 2 | 74 | 50.7 | D2S1352 | 0.200 | 0.026 | 0.208 | 0.032 | ||
| 2 | 252 | 237.9 | D2S2968 | 0.688 | 0.018 | 0.684 | 0.025 | ||
| 3 | 119 | 103.7 | D3S2459 | 0.223 | 0.007 | 0.231 | 0.014 | ||
| 3 | 153 | 140.7 | D3S1764 | 0.029 | 0.271 | 0.035 | 0.248 | ||
| 3 | 177 | 168.7 | D3S1763 | 1.69 | Hahs et al. | ||||
| 3 | 201 | 187.5 | D3S1602 | 0.007** | Hiltunen et al. | ||||
| 3 | 201 | 187.7 | |||||||
| 3 | 209 | 191 | D3S2398 | 2.16 | Hahs et al. | ||||
| 3 | 216 | 193.8 | D3S2418 | 1.18 | Hahs et al. | ||||
| 4 | 78 | D4S2367 | 0.557 | 0.015 | 0.557 | 0.022 | |||
| 4 | 130 | 130.7 | D4S2394 | 2.12 | Hahs et al. | ||||
| 4 | 146 | 143.9 | |||||||
| 4 | 154 | 152.5 | D4S1548 | 3.01 | Hahs et al. | ||||
| 4 | 158 | 158.7 | D4S1629 | 1.32 | Pericak-Vance et al. (2000) | ||||
| 5 | 8 | D5S2849 | 0.590 | 0.031 | 0.589 | 0.038 | |||
| 5 | 92 | 82.3 | D5S1347 | 0.060 | 0.002 | 0.068 | 0.007 | ||
| 5 | 98 | 89.2 | D5S1725 | 1.47 | Hahs et al. | ||||
| 5 | 147 | 144.1 | 0.465 | 0.001 | 0.467 | ||||
| 5 | 175 | 168.4 | D5S400 | 0.04* | Farrer et al. | ||||
| 5 | 183 | 173.2 | |||||||
| 5 | 183 | 173.2 | D5S211 | 1.3 | Blacker et al. | ||||
| 6 | 89 | 77.5 | D6S1031 | 0.024 | 0.046 | 0.030 | 0.051 | ||
| 6 | 160 | 158 | D6S1007 | 0.933 | 0.017 | 0.923 | 0.025 | ||
| 8 | 60 | 32.2 | |||||||
| 8 | 125 | 118.5 | D8S592 | 0.387 | 0.032 | 0.391 | 0.038 | ||
| 8 | 154 | 137.8 | |||||||
| 9 | 14 | D9S2169 | 0.022 | 0.394 | 0.027 | 0.362 | |||
| 10 | 63 | 35.3 | D10S1208 | 0.013 | 0.247 | 0.018 | 0.231 | ||
| 10 | 76 | 57.2 | D10S1221 | 0.028 | 0.054 | 0.034 | 0.059 | ||
| 12 | 78 | 66.2 | D12S1294 | 0.220 | 0.045 | 0.228 | 0.050 | ||
| 13 | 39 | 42.1 | D13S325 | 0.027 | 0.070 | 0.033 | 0.072 | ||
| 13 | 76 | 96.7 | D13S892 | 0.040 | 0.224 | 0.047 | 0.210 | ||
| 14 | 44 | 37.4 | D14S306 | 0.020 | 0.104 | 0.026 | 0.103 | ||
| 14 | 94 | 86.3 | D14S612 | 0.016 | 0.166 | 0.021 | 0.156 | ||
| 15 | 101 | 92.8 | D15S816 | 0.046 | 0.158 | 0.053 | 0.150 | ||
| 15 | 116 | 98.9 | D15S87 | 0.031 | 0.083 | 0.037 | 0.084 | ||
| 16 | 64 | 49.7 | D16S3396 | 0.039 | 0.450 | 0.046 | 0.409 | ||
| 16 | 130 | D16S2621 | 0.227 | 0.036 | 0.235 | 0.042 | |||
| 17 | 36 | 14.2 | |||||||
| 17 | 126 | 77.8 | D17S928 | 0.024 | 0.201 | 0.029 | 0.186 | ||
| 18 | 7 | 3.1 | |||||||
| 18 | 109 | D18S1362 | 0.431 | 0.021 | 0.434 | 0.028 | |||
| 19 | 21 | 6.1 | D19S1034 | 0.013** | Hiltunen et al. | ||||
| 19 | 33 | 9.7 | D19S586 | 2.06 | Hahs et al. | ||||
| 19 | 36 | 12.2 | 0.002 | 0.066 | 0.069 | ||||
| 20 | 39 | 17.3 | D20S470 | 0.027 | 0.206 | 0.033 | 0.191 | ||
| 21 | 27 | 30.6 | D21S1270 | 0.245 | 0.010 | 0.253 | 0.018 | ||
Bold denotes markers nominally significant (p ≤ 0.05) in both allele and genotype comparisions
Italics highlights markers empirically significant at p ≤ 0.005
*SAS software was used to measure significant differences in allele frequency between DAT cases and controls
**Pearson's chi-square was calculated and then empirical significance was determined through examination of 1000 replicated datasets.