Table 1.
TMT AD network mod-QTLs
| SNP | CHR | BP | A1 | Nearest coding gene to SNP | Beta | P value | Module | mod-QTL | Module protein within 1 Mb of SNP |
|---|---|---|---|---|---|---|---|---|---|
| rs28716042 | 8 | 125,418,451 | G | TMEM65 | 0.04 | 3.7 × 10−9 | M3 oligo/myelination | trans | NA |
| rs112028701 | 13 | 104,134,726 | T | SLC10A2 | −0.04 | 3.1 × 10−8 | M22 post-synaptic density | trans | NA |
| rs11021075 | 11 | 94,940,421 | T | SESN3 | 0.02 | 4.9 × 10−8 | M26 complement/acute phase | trans | NA |
| rs1733609 | 7 | 81,536,375 | A | CACNA2D1 | 0.02 | 1.6 × 10−8 | M11 cell–ECM interaction | trans | NA |
| rs429358 | 19 | 45,411,941 | C | APOE | 0.02 | 3.2 × 10−8 | M42 matrisome | cis | APOE |
| rs6940448 | 6 | 3,810,805 | G | FAM50B | −0.02 | 1.4 × 10−8 | M8 protein transport | cis | TUBB2A |
| rs1553484 | 6 | 91,507,934 | A | MAP3K7 | −0.02 | 6.4 × 10−9 | M29 glycosylation/ER | trans | NA |
| rs2352535 | 4 | 114,127,905 | T | ANK2 | 0.02 | 2.4 × 10−8 | M27 ECM | trans | NA |
SNPs associated with the first eigenprotein of a protein module at a genome-wide significant level (P < 5 × 10−8 using Bonferroni correction) were referred to as protein co-expression mod-QTLs. mod-QTLs located within 1 Mb of one of the module proteins were defined as proximal (cis) mod-QTLs; otherwise, they were categorized as distal (trans) mod-QTLs. The associations were determined using linear regression and were adjusted for cognitive diagnosis, sex, ten genetic PCs and genotyping chip. A1, allele; BP, base pair; CHR, chromosome; NA, not applicable.