Table 1.
MGS GWAS results
| SNP | Chromosome/ Band |
Location (BP) |
Odds Ratio |
P-value | Gene(s) | Function/relevance |
|---|---|---|---|---|---|---|
| European-ancestry analysis | ||||||
| rs13025591 | 2q37.2 | 236460082 | 1.225 | 4.59E-07 | CENTG2 | GTPase activator; deletions reported in autism cases.12 |
| rs16941261 | 15q25.3 | 86456524 | 1.255 | 8.10E-07 | NTRK3 | Tyrosine receptor kinase; MAPK signaling. |
| rs10140896 | 14q31.3 | 88288291 | 1.216 | 9.49E-07 | EML5 | Microtubule assembly. |
| rs17176973 | 5p15.2 | 10864474 | 1.679 | 2.16E-06 | (50 kb upstream of DAP; mediates interferon-gamma-induced cell death) | |
| rs17833407 | 9p21.3 | 21738320 | 0.804 | 3.02E-06 | (54 kb upstream of MTAP; enzyme involved in polyamine metabolism) | |
| rs1635239 | Xp22.33 | 3242699 | 0.790 | 3.04E-06 | MXRA5 | Cell adhesion protein. |
| rs915071 | 14q12 | 31503609 | 0.834 | 3.94E-06 | (102 kb downstream of NUBPL; nucleotide binding protein-like) | |
| rs11061935 | 12p13.33 | 1684035 | 0.773 | 4.06E-06 | ADIPOR2 | Adiponectin (antidiabetic drug) receptor. |
| rs6809315 | 3q13.11 | 107360155 | 0.828 | 7.58E-06 | ||
| rs1864744 | 14q31.3 | 88020759 | 0.828 | 7.59E-06 | PTPN21 | Regulation of cell growth and differentiation. |
| rs1177749 | 10q23.33 | 97887981 | 0.835 | 1.29E-05 | ZNF518 | Regulation of transcription. |
| rs17619975 | 6p22.3 | 15510731 | 0.611 | 1.49E-05 | JARID2 | Neural tube formation; histone demethylase; adjacent to DTNBP1 (candidate gene). |
| African American analysis | ||||||
| rs1851196 | 2q34 | 212178865 | 0.733 | 2.14E-06 | ERBB4 | Neuregulin receptor. |
| rs3751954 | 17q25.3 | 75368080 | 0.528 | 4.59E-06 | CBX2 | Polycomb protein; histone modfications, maintenance of transcriptional repression. |
| rs10865802 | 3p24.2 | 25039902 | 1.330 | 6.73E-06 | ||
| rs17149424 | 9q34.13 | 134523705 | 1.680 | 8.00E-06 | DDX31 | RNA helicase family; embryogenesis. |
| rs2162361 | 10q23.31 | 90037689 | 2.020 | 9.19E-06 | C10orf59 | Degrades catecholamine in vitro. |
| rs17149524 | 9q34.13 | 134546628 | 1.642 | 9.59E-06 | GTF3C4 | Required for RNA polymerase III function. |
| rs2587562 | 8q13.3 | 73153592 | 1.301 | 1.56E-05 | TRPA1 | Cannabinoid receptor (cannabis may ↑ schizophrenia risk 1); pain, sound perception. |
| rs4316112 | 8p12 | 32539889 | 0.564 | 1.59E-05 | NRG1 | Neuregulin 1; schizophrenia candidate gene; neuronal development. |
| rs4732838 | 8p21.1 | 28098106 | 0.768 | 1.68E-05 | ELP3 | Histone acetyltransferase, RNA Pol III elongator. |
| rs9927946 | 16p13.2 | 8990868 | 0.718 | 1.70E-05 | (26 kb upstream of UPS7; ubiquitin fusion protein cleavage; induction of apoptosis). | |
| rs13065441 | 3q26.2 | 172478029 | 0.626 | 1.94E-05 | TNIK | Stress-activated serine/threonine kinase |
| rs2729993 | 8p12 | 34116593 | 0.687 | 2.14E-05 | ||
Shown are the top 12 results (excluding duplicates -- SNPs in the same genes or regions with less significant results) of the MGS European-ancestry (2681 cases, 2653 controls) and African American (1286 cases, 973 controls) MGS GWAS analyses. Listed are genes within 10 kb of the SNP and annotated information on possible functional relevance; or (in parentheses), information on genes within 150 kb. The odds ratio is for the tested allele (see Supplementary Datafile 2). Supplementary Datafile 1 contains results for all SNPs with P < 0.001, and full gene names. Results of an additional exploratory analysis that combined the two datasets are summarized in Supplementary Results B1b, Table S18 and Supplementary Datafile 1.