TABLE 5.
The annotations of the significant identified SNPs.
| SNPs | Chr | Position (GRCh38) | Alleles (alt/Ref) | Gene (nearest) | Feature | Expression genes | Reported (yes/No) | Reported phenotypes | GWAS references |
|---|---|---|---|---|---|---|---|---|---|
| rs17017947 | 3 | 276171 | A/C | CHL1 | Intron | — | No | — | — |
| rs41470552 | 10 | 102222133 | T/G | PITX3 | Intergenic | — | No | — | — |
| rs1945647 | 11 | 81602715 | C/T | MTND6P25 | Intergenic | GNAI2,STK40,LIMK1,LIG4, HLTF,ZNF511,CBLL1,NUDT17, POLR3C,DAGLB,KDELR2,NUP93, PRCC,C16orf80,RAB33B,LRP8 | No | — | — |
| rs7927943 | 11 | 81637194 | C/T | MTND6P25 | Intergenic | WSCD2,GNAI2,ZFHX3,NUP93, FAM60A,LIMK1,MAP4, FLJ31958,LIG4,HLTF | No | — | — |
| rs8050136 | 16 | 53782363 | C/A | FTO | Intron | HES7,LATS2 | Yes | BMI, T2D, Adiposity | PMID:18372903 |
| PMID:31217584 | |||||||||
| PMID:19079260 | |||||||||
| rs9939609 | 16 | 53786615 | T/A | FTO | Intron | CR1,CR1L,ZNRF1,ANKRD50, LATS2,TSPYL4,HES7 | Yes | BMI, T2D | PMID:17434869 |
| PMID:31217584 | |||||||||
| PMID:17554300 | |||||||||
| rs1570004 | 20 | 35370450 | A/T | UQCC | Intron | — | Yes | Height | PMID:18193045 |
| rs201561 | 20 | 22018575 | G/C | RPL41P1 | Intergenic | P2RX3,EHD4 | Yes | Balding type 1 | PMID:30595370 |
Annotations are from Ensemble website (https://asia.ensembl.org) and SCAN website (http://scandb.org); intron denotes the SNP is located between exons; intergenic denotes the SNP is located between genes. Expression genes denote annotations added after analysis of transcriptional levels of eQTL in cell lines from HapMap CEU and YRI samples using Affymetrix human exon 1.0 ST array; GWAS references indicate the identifications of PubMed. SNP, single-nucleotide polymorphism; GWAS, genome-wide association study; eQTL, expression quantitative trait locus.