Table 1.
Independent (r 2 < 0.2) loci associated with both schizophrenia (SCZ) and lung cancer (LgCa) as defined by conjunction false discovery rates (ConjFDR < 0.01).
| SNP | Gene | Band | A1 | A2 | p-value | p-value | p-value | z-score | z-score | z-score | ConjFDR | ConjFDR |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SCZ | LgCa | CPD | SCZ | LgCa | CPD | SCZ_LgCa | SCZ_CPD | |||||
| rs7749305 | ZNF184 | 6p22.1 | T | C | 2.385e-17 | 5.084e-06 | NaN | 8.47 | −4.56 | NaN | 2.340e-04 | NaN |
| rs2081361 | AK096335 | 11q12.1 | C | T | 2.525e-04 | 1.667e-05 | 2.517e-01 | −3.66 | −4.31 | −1.15 | 5.891e-03 | 1 |
| rs8042374 | CHRNA3 | 15q25.1 | A | G | 2.056e-08 | 5.302e-32 | 5.067e-23 | 5.61 | 11.77 | 9.88 | 9.317e-07 | 1.960e-05 |
In addition, we include cross-phenotype association of SCZ and smoking status (measured by number of cigarettes per day (CPD)). For each locus we report the lead single nucleotide polymorphism (SNP), closest annotated gene (Gene), genomic position (Band), p-values and z-scores with A1 (reference allele) and A2 (effect allele) for the specific traits. The major histocompatibility complex (MHC) was excluded from the analyses. The SNP rs7749305 on band 6p22.1 has the genomic position (hg19) chr6:27,446,566 and is thus outside the physical boundaries of the MHC. Still, it is an eQTL with a MHC-related gene (BTN3A2, Supplementary Table 3B). Not available number (NaN) if not available in the summary data file.