Table 3.
Top ten single nucleotide polymorphism (SNP) markers significantly (chromosome-wise false discovery rate < 0.05) associated with the cell-mediated immune response in Holstein cows and genes within 250,000 base pairs flanking the markers
| BTA | SNP | Location (bp) | -log 10 P | Entrez gene ID |
|---|---|---|---|---|
| 19 | ARS-BFGL-NGS-101995 | 53,606,174 | 5.28 | RBFOX3, CBX8, CBX2 |
| 27 | ARS-BFGL-NGS-38750 | 4,845,275 | 5.25 | ZNF705A, AGPAT5, SPAG11B, TAP, DEFB103B |
| 19 | UA-IFASA-7781 | 53,963,109 | 4.92 | CANT1, LGALS3BP, TIMP2, C1QTNF1, RBFOX3, USP36 |
| 23 | Hapmap46836-BTA-55820 | 27,923,154 | 4.91 | TCF19, SFTA2, MICB, NRM, FLOT1, PSORS1C2, CDSN, POU5F1, MDC1, CCHCR1, BOLA, DDR1, GTF2H4, TUBB, DHX16, ATAT1, MRPS18B, KIAA1949, IER3 |
| 12 | BTA-86812-no-rs | 23,174,195 | 4.89 | LHFP, STOML3, PROSER1, NHLRC3 |
| 23 | ARS-BFGL-NGS-16619 | 27,887,914 | 4.85 | POU5F1, PSORS1C2, IFITM3, TCF19, MICB, BOLA, IER3, FLOT1, TUBB, CCHCR1, NRM, DDR1, CDSN, GTF2H4, MDC1, KIAA1949, SFTA2 |
| 23 | BTA-27247-no-rs | 26,736,263 | 4.84 | NOTCH4, BTN3A2, TSBP |
| 5 | ARS-BFGL-NGS-627 | 109,734,406 | 4.69 | BID, LGALS2, CDC42EP1, GGA1, MICAL3, BCL2L13, PEX26, TUBA8, ATP6V1E1 |
| 5 | ARS-BFGL-NGS-10118 | 109,774,563 | 4.69 | TUBA8, MICAL3, BID, BCL2L13, CDC42EP1, LGALS2, GGA1, PDXP, LGALS1, NOL12, MIR2438, ATP6V1E1, PEX26 |
| 18 | BTA-24218-no-rs | 32,925,593 | 4.61 | CDH11 |