| Literature DB >> 29081827 |
Mary M Y Waye1, Lim K Poo2, Connie S-H Ho3.
Abstract
BACKGROUND: Doublecortin domain-containing 2 (DCDC2) is a doublecortin domain-containing gene family member and the doublecortin domain has been demonstrated to bind to tubulin and enhance microtubule polymerization. It has been associated with developmental dyslexia and this protein family member is thought to function in neuronal migration where it may affect the signaling of primary cilia.Entities:
Keywords: Chinese; DCDC2; Developmental dyslexia; Genetic association; Genetic variants; Sliding window haplotype analysis
Year: 2017 PMID: 29081827 PMCID: PMC5633722 DOI: 10.2174/1745017901713010104
Source DB: PubMed Journal: Clin Pract Epidemiol Ment Health ISSN: 1745-0179
Single-marker analysis between SNPs of DCDC2 and categorical DD.
|
|
|
|
|
|
|
|
|---|---|---|---|---|---|---|
| rs3765502 | A/G | 24354045 | Intron 1 | A (0.545) | 0.97 (0.67–1.39) | 0.8527 |
| rs813227 | C/T | 24353742 | Intron 2 | C (0.38) | 1.09 (0.73–1.63) | 0.6799 |
| rs10498720 | G/T | 24353436 | Intron 2 | G (0.178) | 1.44 (0.93–2.23) | 0.0987 |
| rs6940827 | C/T | 24351301 | Intron 2 | C (0.807) | 1.82 (1.14–2.9) | 0.011* |
| rs1277351 | A/G | 24346056 | Intron 2 | A (0.574) | 0.92 (0.64–1.32) | 0.641 |
| rs9379655 | G/T | 24341380 | Intron 2 | G (0.422) | 0.97 (0.68–1.37) | 0.8586 |
| rs7770684 | C/T | 24340212 | Intron 2 | C (0.848) | 0.92 (0.57–1.47) | 0.7179 |
| rs9467110 | G/T | 24321028 | Intron 2 | G (0.151) | 0.94 (0.57–1.54) | 0.7995 |
| rs10806987 | A/G | 24315743 | Intron 2 | A (0.564) | 0.87 (0.61–1.23) | 0.4243 |
| rs9379651 | A/G | 24314900 | Intron 2 | A (0.391) | 0.92 (0.64–1.32) | 0.6494 |
| rs11754080 | C/T | 24284244 | Intron 6 | C (0.846) | 1.14 (0.69–1.87) | 0.6113 |
| A/G | 24273791 | Intron 7 | A (0.801) | 1.08 (0.7–1.67) | 0.7389 | |
| rs870601 | C/T | 24261060 | Intron 7 | C (0.803) | 1.11 (0.71–1.71) | 0.6547 |
| rs9358760 | C/T | 24249893 | Intron 7 | C (0.233) | 1.18 (0.77–1.82) | 0.442 |
| rs1087287 | C/G | 24237289 | Intron 7 | C (0.383) | 1.06 (0.73–1.54) | 0.7738 |
| rs9467080 | C/G | 24217261 | Intron 7 | C (0.21) | 0.98 (0.63–1.5) | 0.9126 |
| rs16888894 | C/T | 24209886 | Intron 7 | C (0.415) | 0.94 (0.64–1.39) | 0.7697 |
| C/T | 24207200 | Intron 7 | C (0.541) | 1.02 (0.7–1.49) | 0.923 | |
| rs793861 | A/T | 24206616 | Intron 7 | A (0.53) | 1 (0.69–1.45) | 1 |
| rs793850 | C/T | 24195935 | Intron 8 | C (0.632) | 0.92 (0.62–1.37) | 0.6891 |
| rs1343624 | C/T | 24193138 | Intron 8 | C (0.598) | 0.98 (0.67–1.44) | 0.9215 |
| rs3789220 | A/G | 24189275 | Intron 8 | A (0.141) | 0.79 (0.45–1.37) | 0.3956 |
| rs793845 | C/T | 24188991 | Intron 8 | C (0.458) | 0.98 (0.68–1.43) | 0.9244 |
| rs1277190 | C/T | 24186590 | Intron 8 | C (0.141) | 0.94 (0.56–1.55) | 0.7962 |
| rs3804323 | C/T | 24185739 | Intron 8 | C (0.802) | 0.88 (0.56–1.38) | 0.5636 |
| rs2791972 | G/T | 24185221 | Intron 8 | G (0.204) | 0.89 (0.59–1.36) | 0.596 |
| rs2996452 | C/T | 24180366 | Intron 8 | C (0.628) | 0.76 (0.53–1.1) | 0.1434 |
| rs1318700 | A/T | 24177469 | Intron 9 | A (0.854) | 0.68 (0.41–1.1) | 0.1111 |
| rs1936389 | G/T | 24177457 | Intron 9 | G (0.41) | 0.88 (0.6–1.28) | 0.4984 |
*Adjusted p-value from permutation test is 0.1329.
Results of the haplotype analysis using 2- or 3-markers sliding window in markers of DCDC2 gene.
|
|
|
|
|
| ||
|---|---|---|---|---|---|---|
|
|
| |||||
| rs10498720-rs6940827 | G-C | 0.188 | 1 | 0.0997 | 0.2068 | |
| T-C | 0.632 | 1.321 (0.8461 – 2.061) | 0.5408 | |||
| T-T | 0.180 | 2.281 (1.255 – 4.148) | 0.0116 | |||
| rs2996452-rs1318700 | C-A | 0.475 | 1 | 0.0036 | ||
| C-T | 0.137 | 0.4724 (0.2589 – 0.873) | 0.0953 | |||
| T-A | 0.371 | 0.5834 (0.3804 – 0.8947) | 0.0922 | |||
| T-T | 0.016 | 0.8063 (0.1407 – 4.62) | 0.7442 | |||
| rs6940827-rs1277351-rs9379655 | C-A-G | 0.401 | 0.0251 | 1 | 0.6823 | 0.3227 |
| C-A-T | 0.029 | 0.5245 (0.1537 – 1.789) | 0.2484 | |||
| C-G-T | 0.387 | 0.8443 (0.5539 – 1.287) | 0.1061 | |||
| T-A-G | 0.013 | 5.175 (0.6055 - 44.22) | 0.0745 | |||
| T-A-T | 0.126 | 1.448 (0.8191 – 7.722) | 0.1797 | |||
| T-G-T | 0.040 | 2.675 (0.9268 – 7.722) | 0.0435 | |||
| rs10498720-rs6940827-rs1277351-rs9379655 | T-C-A-G | 0.398 | 0.03576 | 1 | 0.7079 | 0.1199 |
| T-C-G-T | 0.216 | 1.01 (0.624 - 1.634) | 0.9921 | |||
| G-C-C-T | 0.173 | 0.7118 (0.4216 - 1.202) | 0.0624 | |||
| T-T-A-T | 0.126 | 1.473 (0.8322 - 2.607) | 0.181 | |||
| T-T-G-T | 0.038 | 2.466 (0.848 - 7.172) | 0.0591 | |||
| T-C-A-T | 0.020 | 0.3875 (0.07633 - 1.967) | 0.1575 | |||
| T-T-A-G | 0.015 | 6.143 (0.7291 - 51.76) | 0.0537 | |||
| rs6940827-rs1277351-rs9379655-rs7770684 | C-A-G-C | 0.405 | 0.0089 | 1 | 0.6203 | |
| C-G-T-C | 0.379 | 0.869 (0.5665 - 1.333) | 0.2601 | |||
| T-A-T-T | 0.117 | 1.285 (0.7124 - 2.319) | 0.3257 | |||
| T-G-T-C | 0.040 | 2.385 (0.8213 - 6.926) | 0.0659 | |||
| C-A-T-T | 0.024 | 0.2622 (0.0547 - 1.258) | 0.0572 | |||
| rs793862-rs793861-rs793850-rs1343624 | T-T-C-T | 0.390 | 1 | 0.7545 | ||
| C-A-T-C | 0.357 | 0.837 (0.5238 - 1.337) | 0.4057 | |||
| C-A-C-C | 0.155 | 1.032 (0.5591 - 1.905) | 0.4148 | |||
| T-T-C-C | 0.059 | 1.206 (0.5169 - 2.813) | 0.5226 | |||
Quantitative analysis of DCDC2 single SNP markers in HKT-SpLD tests. Only markers with nominal p values < 0.05 are shown.
|
|
|
|
|
| ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
|
|
|
|
|
|
|
|
|
|
| |
| rs3789220 | 0.0443 | |||||||||||
| rs793845 | 0.0165 | |||||||||||
| rs1277190 | 0.0295 | 0.0167 | ||||||||||
| rs2791972 | 0.0468 | |||||||||||
| Adjusted P value (permutation x1000) | NS | NS | NS | |||||||||
Test of interaction between KIAA0319 and DCDC2.
|
|
|
| |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
|
|
|
|
| |||||||||
|
|
|
|
|
|
|
|
|
|
|
|
| ||
| rs3765502 | 0.4981 | ||||||||||||
| rs813227 | 0.1955 | 0.0120 | |||||||||||
| rs10498720 | 0.2424 | 0.0080 | |||||||||||
| rs6940827 | 0.6259 | ||||||||||||
| rs1277351 | 0.3138 | 0.0160 | |||||||||||
| rs9379655 | 0.8371 | ||||||||||||
| rs7770684 | 0.9912 | ||||||||||||
| rs9467110 | 0.7079 | 0.0410 | 0.0375 | ||||||||||
| rs10806987 | 0.2613 | ||||||||||||
| rs9379651 | 0.2071 | ||||||||||||
| rs11754080 | 0.9245 | ||||||||||||
| rs807701 | 0.6410 | 0.0059 | |||||||||||
| rs870601 | 0.7270 | ||||||||||||
| rs9358760 | 0.0287 | 0.0205 | 0.0258 | ||||||||||
| rs1087287 | 0.0084 | 0.0253 | 0.0273 | ||||||||||
| rs9467080 | 0.7160 | 0.0440 | |||||||||||
| rs16888894 | 0.2402 | ||||||||||||
| rs793862 | 0.1332 | 0.0430 | |||||||||||
| rs793861 | 0.1044 | ||||||||||||
| rs793850 | 0.0079 | ||||||||||||
| rs1343624 | 0.1126 | ||||||||||||
| rs3789220 | 0.5872 | ||||||||||||
| rs793845 | 0.3169 | ||||||||||||
| rs1277190 | 0.2729 | 0.0020 | |||||||||||
| rs3804323 | 0.0113 | ||||||||||||
| rs2791972 | 0.3055 | 0.0440 | 0.0140 | ||||||||||
| rs2996452 | 0.6091 | 0.0400 | |||||||||||
| rs1318700 | 0.7176 | ||||||||||||
| rs1936389 | 0.4401 | ||||||||||||
| Permutation | NS | NS | NS | NS | NS | NS | NS | ||||||
Alleles and frequencies of the compound STR, dbSTS ID 808238.
|
|
|
|
|
|
|
|
|
|
|
|
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | (GAGAGGAAGGAAA)2 | (GGAA)7 | (GGAA)2 | (GGAA)4 | (GGGA)2 | 0.361 | 0.356 | 0.481 | 0.624 | |
| 2 | (GAGAGGAAGGAAA)1 | (GGAA)9 | DelGAAA | (GGAA)0 | (GGAA)4 | (GGGA)2 | 0 | 0 | 0 | 0.003 |
| 3 | (GAGAGGAAGGAAA)1 | (GGAA)6 | (GGAA)2 | (GGAA)4 | (GGGA)2 | 0 | 0.005 | 0 | 0.06 | |
| 4 | (GAGAGGAAGGAAA)2 | (GGAA)6 | (GGAA)2 | (GGAA)4 | (GGGA)2 | 0.213 | 0.194 | 0.183 | 0.106 | |
| 5 | (GAGAGGAAGGAAA)2 | (GGAA)8 | (GAA)2 | (GGAA)4 | (GGGA)2 | 0.046 | 0.037 | 0 | 0.028 | |
| 6 | (GAGAGGAAGGAAA)2 | (GGAA)8 | (GGAA)2 | (GGAA)3 | (GGGA)2 | 0.009 | 0.005 | 0 | 0.039 | |
| 7 | (GAGAGGAAGGAAA)2 | (GGAA)8 | (GGAA)1 | (GGAA)4 | (GGGA)2 | 0 | 0 | 0 | 0.003 | |
| 8 | (GAGAGGAAGGAAA)2 | (GGAA)7 | DelGAAA | (GGAA)0 | (GGAA)4 | (GGGA)2 | 0 | 0 | 0 | 0.003 |
| 9 | (GAGAGGAAGGAAA)1 | (GGAA)7 | (GGAA)2 | (GGAA)4 | (GGGA)2 | 0.009 | 0.014 | 0.029 | 0.005 | |
| 10 | (GAGAGGAAGGAAA)2 | (GGAA)4 | (GGAA)2 | (GGAA)4 | (GGGA)2 | 0.009 | 0.005 | 0 | 0.044 | |
| 11 | (GAGAGGAAGGAAA)2 | (GGAA)7 | (GGAA)2 | (GGAA)3 | (GGGA)2 | 0 | 0 | 0.01 | - | |
| 14# | x | x | x | x | x | x | 0.352 | 0.384 | 0.298 | 0.085 |
*Frequency among Dyslexic Child of the Dyslexic families **Frequency among Parents of the Dyslexic families ***Frequency among Controls ^Allele Types which have been reported in the published paper by Meng et al., 2005. @Frequency among parents of the Colorado Learning Disability Research Center families, reported by Meng et al., 2005. #Allele 14 is the 2,445 bp deletion.
Summary of results.
|
|
|
| |
|---|---|---|---|
|
|
|
| |
| Nominal Significant | Nominal Significant | Nominal Significant | |
| Not Significant | NA | NA | |