Table 5.
Integrative analysis (Colocalization and PrediXcan) in the Hispanic Americans using multi-ancestry resources from MESA and GTEx.
| Colocalization Analysis | PrediXcan | |||
|---|---|---|---|---|
| MESA multi-ancestry eQTLs | GTEx eQTLs | MESA | GTEx | |
| AA | Chromosome 11 | |||
| MED19, TMEM258, PACS1, RAD9A | RPS4XP13, AP001462.6 | TMEM258, TMEM109, ZBTB3, TTC9C, FERMT3, MED19, POLD4, CLCF1, INCENP, MADD, SSH3, C11orf24, PRPF19, TBC1D10C, BANF1, CCDC86, NXF1, MS4A6E, CCS, COX8A, CCDC88B, ACP2, MAP4K2 | TMEM258, TMEM223, NXF1, INCENP, MUS81, C11orf84, MED19, MEN1, BBS1, NEAT1, DPP3, SSH3, ACP2, ASRGL1, RNASEH2C | |
| ALA | Chromosome 11 | |||
| TMEM258, MED19 | MED19, PGA5, TMEM258 | TMEM258, TMEM109 | TMEM258 | |
| DGLA | Chromosome 11 | |||
| TMEM258 | TMEM258, ZBTB3 | TMEM258, FADS1, FADS2 | ||
| Chromosome 16 | ||||
| PDXDC1 | RP11-426C22.5 | PDXDC1 | NPIPA2 | |
| DPA | Chromosome 11 | |||
| TMEM258, C11orf24, RAD9A | PGA5 | TMEM258, TMEM109 | TMEM258, SSH3, TMEM223 | |
| EPA | Chromosome 11 | |||
| TMEM258 | TPCN2 | TMEM258, FERMT3, TMEM109 | TMEM258, SSH3, TMEM223 | |
| GLA | Chromosome 11 | |||
| TMEM258 | MEN1 | TMEM258 | TMEM258 | |
| Chromosome 11 | ||||
| LA | MED19, CTTN, C11orf24, RAD9A | MED19, TPCN2, FADS1, RPS4XP13, AP001462.6 | TMEM258, TMEM109, FERMT3, ZBTB3, COX8A, MADD, POLD4, TBC1D10C, INCENP, TTC9C, MED19, CLCF1, SSH3, ACP2 | TMEM258, INCENP, SSH3, C11orf84, TMEM223, GIF, NXF1, MED19, MUS81, ACP2 |
Table 5 shows the results of integrative analysis including colocalization analysis and PrediXcan in HIS by using MESA and GTEx eQTL data. For colocalization analysis, eQTL resources include MESA multi-ancestry eQTL from purified monocytes and GTEx European ancestry whole blood tissue eQTL. GWAS signals with posterior colocalization probability of hypothesis 4 (PP.H4) > 0.80, or PP.H4 > 0.50 and the ratio of PP.H4 / PP.H3 > 5 were considered colocalized with eQTL. For PrediXcan, reference gene expression prediction models include MESA purified monocytes and GTEx European ancestry whole blood, and multiple testing correction was applied across all genes tested (MESA: P < 0.05/4470 = 0.00001 and GTEx: P < 0.05/4350 = 0.00001).