Table 3 Transcriptomic results of the CT-rich SNCA haplotypes using CAGE sequencing and bulk gene-level RNA sequencing from brain frontal cortex from the NABEC cohort
Expression Dataset | Cohort | N | Variant ID | AF | P-nominal | FDR | Beta | SE |
|---|---|---|---|---|---|---|---|---|
CAGE (chr4:89836178-89836272) | NABEC | 78 | Haplotype 1 | 0.218 | 3.91E-02 | 2.71E-01 | -0.344 | 0.164 |
Haplotype 2 | 0.397 | 5.74E-06 | 3.52E-04 | 0.594 | 0.122 | |||
Haplotype 3 | 0.115 | 1.66E-03 | 4.89E-02 | 0.700 | 0.215 | |||
Haplotype 4 | 0.269 | 3.76E-08 | 3.07E-06 | -0.792 | 0.130 | |||
rs3756059 | 0.463 | 7.31E-15 | 1.79E-12 | -0.878 | 0.091 | |||
rs356182 (PD) | 0.356 | 2.98E-02 | 2.53E-01 | -0.324 | 0.146 | |||
rs5019538 (PD) | 0.294 | 1.80E-03 | 4.89E-02 | -0.465 | 0.144 | |||
rs2289728 (PD) | 0.113 | 2.49E-03 | 6.10E-02 | 0.672 | 0.215 | |||
rs7680557 (LBD) | 0.519 | 3.67E-14 | 4.49E-12 | 0.868 | 0.094 |
