Table 2: Top significant local-eQTLs targeting candidate genes for cows fed the high concentrate (HC) diet.
rsID | Gene.name | Gene type | FDR | Position | Freq | Genotype | Gene position |
rs135948495 | UHRF1 | DE | 6.72E-03 | 7:20322296 | 5/9/5 | CC/CA/AA | 7:20436670-20469912 |
rs134849198 | UHRF1 | DE | 6.72E-03 | 7:20327318 | 5/9/5 | CC/CA/AA | 7:20436670- 20469912 |
rs137012774 | UHRF1 | DE | 6.72E-03 | 7:20336175 | 5/9/5 | CC/CA/AA | 7:20436670- 20469912 |
rs133674837 | BDH2 | DE | 4.81E-03 | 6:23051485 | 6/8/5 | CC/CA/AA | 6:23047057- 23077431 |
rs109739833 | HSD17B4 | DE | 1.14E-02 | 7:35653128 | 7/10/2 | AA/AG/GG | 7:35662599- 35763653 |
rs110212970 | GIMAP4 | DE | 7.88E-04 | 4:113608223 | 8/9/2 | GG/GA/AA | 4:113866800- 113874303 |
rs109963253 | GIMAP4 | DE | 7.88E-04 | 4:113638587 | 8/9/2 | GG/GA/AA | 4:113866800- 113874303 |
rs ID = reference SNP cluster ID; Gene Name = name of the targeted genes; Gene type = type of candidate gene: Hub genes (HG) or differentially expressed genes (DE);
FDR = False Discovery Rate of the association between SNP and gene expression, Position = genome position of the SNP, Freq = frequency of each genotypes
(A1A1/A1A2/A2A2) in the cows analysed, Genotype = genotype at the SNP locus (A1A1/A1A2/A2A2), Gene position = genome position of the targeted gene.