Table 2. SNPs associated with the first principal component of D2L gene set expression.
| Rank | Marker | Locus | Genea | Gene name | Uncorrected P-value | MAF | PGC P-value |
|---|---|---|---|---|---|---|---|
| 1 | rs2486064 | 1q32.1 | CHIT1 | Chitinase 1 | 5.0 × 10−6 | 0.22 | 0.088 |
| 2 | rs6902039 | 6p22.3 | GPLD1 | Glycosylphosphatidyl inositol-specific phospholipase D1 | 4.6 × 10−4 | 0.23 | 0.48 |
| 3 | rs851436 | 2p24.1 | OSR1 | Odd-skipped related 1 | 1.0 × 10−3 | 0.48 | 0.77 |
| 4 | rs9297283 | 8q22.2 | POP1 | Processing of precursor 1, ribonuclease P/MRP subunit | 1.0 × 10−3 | 0.20 | 0.33 |
| 5 | rs12940715 | 17q25.1 | SDK2 | Sidekick cell adhesion molecule 2 | 1.7 × 10−3 | 0.20 | 0.050 |
| 6 | rs1805453 | 17p13.2 | DHX33 | DEAH (Asp–Glu–Ala–His) Box Polypeptide 33 | 2.8 × 10−3 | 0.34 | 0.054 |
| 7 | rs11213916 | 11q22.3 | BTG4 | B-cell translocation gene 4 | 3.0 × 10−3 | 0.30 | 0.50 |
| 8 | rs1037791 | 7p21.1 | AGR2 | Anterior gradient 2 | 3.2 × 10−3 | 0.31 | 0.94 |
Abbreviations: MAF, minor allele frequency in the Braincloud sample; PGC, Psychiatric Genomics Consortium; SNP, single-nucleotide polymorphism.
a
The Gene column reports the genes included in the D2L gene set. SNPs fall in a ±100 kbp window from the set genes.
P-values refer to the association with diagnosis of schizophrenia.