Table 2.
Top genomic windows identified in the Bayesian genome-wide association studies (windows-based single trait approach) for the 30 blood parameters.
| Traita | SSCb | Startc | Endd | Mbpe | SNPsf | % Varg | Genesh | Previous studiesi |
|---|---|---|---|---|---|---|---|---|
| Haematological traits | ||||||||
| BASO | 14 | 67,039,033 | 67,985,525 | 0.95 | 25# | 1.36 | REEP3 | LYMPHO28 |
| HCT | 7 | 50,022,514 | 50,996,708 | 0.97 | 34 | 0.93 | IL16; STARD5; TMC3; LOC102160759; MEX3B; EFL1; SAXO2 | — |
| HGB | 7 | 50,022,514 | 50,996,708 | 0.97 | 34 | 1.3 | IL16; STARD5; TMC3; LOC102160759; MEX3B; EFL1; SAXO2 | — |
| 7 | 52,033,314 | 52,890,898 | 0.86 | 24 | 0.71 | HOMER2; WHAMM; FSD2; AP3B2; CPEB1; RPS17; PDE8A; SLC28A1; ALPK3; ZNF592; SEC. 11 A; NMB; WDR73 | — | |
| 18 | 36,020,050 | 36,959,194 | 0.94 | 16# | 0.94 | DNAJB9; THAP5; GPR141; ELMO1 | — | |
| MCH | 14 | 6,142,147 | 6,991,699 | 0.85 | 25#,§ | 0.72 | DOK2; XPO7; NPM2; FGF17; DMTN; LOC110256689; LOC110256690; FAM160B2; NUDT18; HR; REEP4; LGI3; SFTPC; BMP1; PHYHIP; POLR3D; PIWIL2; SLC39A14; PPP3CC; SORBS3; PDLIM2; CCAR2; BIN3; EGR3; PEBP4 | — |
| 14 | 8,994,489 | 8,994,023 | 0.99 | 27 | 0.72 | ADAM28; ADAMDEC1; ADAM7; NEFM; NEFL | — | |
| MCV | 8 | 17,019,764 | 17,986,937 | 0.97 | 23# | 1.43 | PPARGC1A | — |
| PLT | 1 | 24,020,779 | 24,830,003 | 0.81 | 20# | 0.91 | — | — |
| RBC | 5 | 100,071,672 | 100,955,310 | 0.88 | 24 | 0.71 | PPFIA2; ACSS3; LIN7A; LOC110260827; MYF5; MYF6; PTPRQ | — |
| 7 | 27,045,611 | 27,963,262 | 0.92 | 31 | 0.72 | KLHL31; GCLC; KHDRBS2 | — | |
| Clinical-biochemical traits | ||||||||
| Alb | 6 | 88,007,685 | 88,895,391 | 0.89 | 28# | 1.16 | SERINC2; LOC100520618; TINAGL1; HCRTR1; PEF1; COL16A1; ADGRB2; SPOCD1; PTP4A2; KHDRBS1; TMEM39B; KPNA6; TXLNA; CCDC28B; IQCC; DCDC2B; TMEM234; EIF3I; LOC106510645; FAM167B; LCK; HDAC1; MARCKSL1; FAM229A; BSDC1; TSSK3; ZBTB8B | — |
| ALT | 18 | 48,008,832 | 48,983,680 | 0.97 | 20# | 0.71 | STK31; FAM221A; UPP1; C18H7orf57; SUN3; HUS1; LANCL2; VOPP1; PGAM2; DBNL; UBE2D4; LOC100525140; MRPS24; TNS3 | |
| NW_018084979.1 | 2,062,221 | 2,846,867 | 0.78 | 24 | 1.78 | — | — | |
| NW_018084979.1 | 3,094,869 | 3,331,399 | 0.21 | 7# | 1.06 | — | — | |
| HDL-Chol | 4 | 9,035,765 | 9,963,475 | 0.93 | 21§ | 0.84 | OC90; EFR3A; ADCY8 | — |
| 9 | 42,015,102 | 42,977,109 | 0.96 | 29 | 0.95 | NXPE4; CADM1 | ||
| LDL-Chol | 1 | 228,174,388 | 228,987,611 | 0.81 | 15# | 0.81 | OSTF1; PCSK5 | 33, 90, 91 |
| 3 | 12,025,480 | 12,941,569 | 0.92 | 27# | 0.82 | CASTOR2 | — | |
| 3 | 117,016,694 | 117,989,682 | 0.97 | 21# | 5.05 | TDRD15; APOB; LDAH; GDF7; HS1BP3; RHOB; LOC100523732; PUM2; SDC1 | — | |
| 14 | 43,074,710 | 43,957,703 | 0.88 | 31# | 0.9 | KIAA1671; CRYBB3; CRYBB2; LOC110256814; GRK3; MYO18B; SEZ6L | — | |
| T-Chol | 3 | 117,016,694 | 117,989,682 | 0.97 | 21# | 2.77 | TDRD15; APOB; LDAH; GDF7; HS1BP3; RHOB; LOC100523732; PUM2; SDC1 | 33, 90, 91 |
| UA | 5 | 31,022,891 | 31,954,627 | 0.93 | 28# | 0.74 | GRIP1; CAND1 | — |
aFull names are reported as note to Table 1.
bSSC = Sus scrofa chromosome.
cStart: position of the first SNP in the window.
dEnd: position of the last SNP in the window.
eMbp: window size.
fSNPs: number of SNPs overlapping the window.
g% Var: proportion of genetic variance explained by the window.
hGenes: protein coding genes located within the window.
iReferences and traits (if different from that of the corresponding QTL) that showed QTLs in the same chromosome region. The symbol “−” indicates that no QTLs have been reported for the same or similar traits in that region.
#The window contains SNPs detected via the single-marker single-trait approach.
§The window contains SNPs detected via the single-marker multi-traits approach.