Table 2. SNPs and genes associated with resistance to lovastatin.
| SNP ID (Affy.) | dbSNP ID (rs number) | Chr. location | Alleles | Minor allele in NCI60 panel (number of alleles*) | Minor allele frequency in resistant cell lines (number of alleles*) | Minor allele frequency in sensitive cell lines (number of alleles*) | CHISQ | Unadjusted p value | Odds ratio | Lower confidence interval (95) | Upper confidence interval (95) | FDR_BH | Genomic location |
| 1840275 | rs2332056, rs4339143 | 3q13 | T/C | T (11/74) | 0.01852 (1/54) | 0.5 (10/20) | 26.74 | 2.33E-07 | 0.01887 | 0.002168 | 0.1642 | 0.00712 | intron 5 of EAF2 |
| 2032591 | rs7667099 | 4q25 | C/T | C (28/86) | 0.1774 (11/62) | 0.7083 (17/24) | 22.21 | 2.44E-06 | 0.08881 | 0.02971 | 0.2655 | 0.02485 | intron 2 of ANK2 |
| 2123836 | n/a | 5p | G/A | G (8/88) | 0 (0/64) | 0.3333 (8/24) | 23.47 | 1.27E-06 | n/a | n/a | n/a | 0.01939 | between LOC340094 and LOC729099 |
| 2458853 | rs3777486 | 6q23 | T/C | T (5/78) | 0 (0/62) | 0.3125 (5/16) | 20.7 | 5.37E-06 | n/a | n/a | n/a | 0.04111 | intron 1 of AKAP7 |
| 2379872 | n/a | 6p | A/G | A (18/72) | 0.1 (5/50) | 0.5909 (13/22) | 19.64 | 9.37E-06 | 0.07692 | 0.02192 | 0.2699 | 0.0425 | intron 1 of C6orf142 |
| 2415786 | n/a | 6q | G/A | G (11/82) | 0.03333 (2/60) | 0.4091 (9/22) | 19.57 | 9.71E-06 | 0.04981 | 0.009604 | 0.2583 | 0.0425 | between CNR1 and LOC644119 |
| 2601462 | n/a | 7q | T/C | T (6/72) | 0 (0/54) | 0.3333 (6/18) | 19.64 | 9.37E-06 | n/a | n/a | n/a | 0.0425 | intron 2 of STEAP2 |
| 361943 | rs4298845 | 10q | C/G | C (13/76) | 0.05357 (3/56) | 0.5 (10/20) | 20.71 | 5.33E-06 | 0.0566 | 0.01319 | 0.2429 | 0.04111 | between NRG3 and LOC728027 |
| 678678 | rs997269 | 12q | G/A | G (21/82) | 0.1167 (7/60) | 0.6364 (14/22) | 22.82 | 1.78E-06 | 0.07547 | 0.02335 | 0.2439 | 0.03407 | between TMEM132C and LOC644489 |
| 675821 | rs4765299 | 12q | T/C | T (10/80) | 0.01724 (1/58) | 0.4091 (9/22) | 22.39 | 2.22E-06 | 0.02534 | 0.002946 | 0.218 | 0.03407 | between LOC644152 and LOC728171 |
| 749272 | rs768826 | 13q | T/C | T (25/70) | 0.2 (10/50) | 0.75 (15/20) | 18.82 | 1.44E-05 | 0.08333 | 0.02444 | 0.2841 | 0.03275 | between DACH1 and LOC647277 |
| 733322 | rs831223 | 13q | C/T | C (6/90) | 0 (0/66) | 0.25 (6/24) | 17.68 | 2.62E-05 | n/a | n/a | n/a | 0.03673 | between DIAPH3 and LOC341689 |
| 726318 | n/a | 13q | T/C | T (6/88) | 0 (0/64) | 0.25 (6/24) | 17.17 | 3.42E-05 | n/a | n/a | n/a | 0.04159 | between OLFM4 and LOC387930 |
| 888232 | rs2888473 | 14q | T/A | T (12/74) | 0.05357 (3/56) | 0.5 (9/18) | 19.98 | 7.82E-06 | 0.0566 | 0.01281 | 0.25 | 0.02856 | between FLRT2 and LOC283584 |
| 880180 | n/a | 14q | G/A | G (16/78) | 0.08621 (5/58) | 0.55 (11/20) | 19.62 | 9.45E-06 | 0.07719 | 0.02164 | 0.2753 | 0.02876 | between LOC730007 and DIO2 |
| 814584 | rs1950874 | 14p | A/G | A (12/84) | 0.03333 (2/60) | 0.4167 (10/24) | 20.57 | 5.74E-06 | 0.04828 | 0.009492 | 0.2455 | 0.02856 | between NOVA1 and OR7K1P |
| 819408 | rs1033706 | 14p | C/T | C (17/82) | 0.08621 (5/58) | 0.5 (12/24) | 17.69 | 2.60E-05 | 0.09434 | 0.02794 | 0.3186 | 0.03673 | between PRKD1 and SYF2P (pseudogene) |
| 1621189 | n/a | 21q | G/A | G (8/88) | 0 (0/64) | 0.3333 (8/24) | 23.47 | 1.27E-06 | n/a | n/a | n/a | 0.02321 | between CYCSP42 and USP25 |
| 1009300 | rs1019553 | 16p | G/T | G (4/74) | 0 (0/60) | 0.2857 (4/14) | 18.12 | 2.07E-05 | n/a | n/a | n/a | 0.03673 | between PRM1 and C16orf75 |
| 1164490 | rs7233911 | 18p | C/T | C (17/80) | 0.1 (6/60) | 0.55 (11/20) | 18.15 | 2.04E-05 | 0.09091 | 0.02685 | 0.3078 | 0.03673 | between LOC284230 and ZNF519 |
| 1152242 | rs641287 | 18p11 | A/T | A (17/84) | 0.1061 (7/66) | 0.5556 (10/18) | 17.7 | 2.58E-05 | 0.09492 | 0.02814 | 0.3202 | 0.03673 | intron 4 of LPIN2 |
| 1280595 | rs1650937 | 19q | A/C | A (9/80) | 0.01724 (1/58) | 0.3636 (8/22) | 19.17 | 1.20E-05 | 0.0307 | 0.003542 | 0.2661 | 0.03122 | located in LOC204800 (a pseudogene) |
| 1621191 | rs2823460 | 21q | A/G | A (7/78) | 0 (0/54) | 0.2917 (7/24) | 20.28 | 6.69E-06 | n/a | n/a | n/a | 0.02856 | between USP25 and CYCSP42 |
| 1625348 | rs2824643 | 21q | T/C | T (9/82) | 0.01724 (1/58) | 0.3333 (8/24) | 17.36 | 3.10E-05 | 0.03509 | 0.004081 | 0.3017 | 0.04036 | between LOC643081 and CHODL |
| 1709633 | n/a | 22q | A/G | A (27/88) | 0.1719 (11/64) | 0.6667 (16/24) | 20.09 | 7.38E-06 | 0.1038 | 0.03564 | 0.3021 | 0.02856 | intron 11 of PARVB |
Genome wide association test results for Lovastatin. n/a: not applicable, as the minor allele frequency of the alleles in one group (the resistant cell line group) is 0, these calculations cannot be performed.
*Please note that the number of alleles may differ in each marker due to missing genotypes in the panel.