Table 2.
Top 25 variants sorted by ascending p-value based on analysis of the association of genotype frequency with heroin addiction
| Rank order | Variant | Control genotype, N (frequency) | Case genotype, N (frequency) | P-valuea (q-value) | Cytoband | Variant location | Distance (nucleotides)b | Gene | Gene description | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
| |||||||||||||
| AA | AB | BB | AA | AB | BB | ||||||||
| 1 | rs1714984 | 7 (0.07) | 19 (0.19) | 74 (0.74) | 7 (0.07) | 49 (0.49) | 44 (0.44) | 2.24 ×10−5 (0.2064) | 17p12 | Intronc | MYOCD | Myocardin | |
| 2 | rs965972 | 0 (0.00) | 1 (0.01) | 99 (0.99) | 2 (0.02) | 15 (0.15) | 83 (0.83) | 7.95 ×10−5 (0.3663) | 1q31.2 | ||||
| 3 | rs1867898 | 5 (0.05) | 44 (0.44) | 51 (0.51) | 9 (0.09) | 18 (0.18) | 73 (0.73) | 2.84 ×10−4 (0.6834) | 2q21.2 | ||||
| 4 | rs1986513 | 79 (0.79) | 18 (0.18) | 3 (0.03) | 96 (0.96) | 4 (0.04) | 0 (0.00) | 4.42 ×10−4 (0.6834) | 4q28.1 | ||||
| 5 | rs1408830 | 56 (0.57) | 37 (0.38) | 5 (0.05) | 33 (0.33) | 50 (0.50) | 17 (0.17) | 5.94 ×10−4 (0.6834) | 1q31.2 | Intron | HRPT2 | Hyperpara-thyroidism 2 | |
| Upd | 43 432 | B3GALT | UDP-Gal: βGlcNAc β 1,3-galactosyl- transferase, polypeptide 2 | ||||||||||
| 6 | rs1381784 | 1 (0.01) | 37 (0.39) | 58 (0.60) | 11 (0.11) | 47 (0.48) | 40 (0.41) | 8.05 ×10−4 (0.6834) | 11p12 | ||||
| 7 | rs1459874 | 32 (0.32) | 63 (0.63) | 5 (0.05) | 37 (0.37) | 43 (0.43) | 20 (0.20) | 1.01 ×10−3 (0.6834) | 11p14.3 | ||||
| 8 | rs1358815 | 13 (0.13) | 55 (0.56) | 30 (0.31) | 14 (0.14) | 31 (0.31) | 54 (0.55) | 1.02 ×10−3 (0.6834) | 6p11.2 | Intron | PRIM2A | DNA primase large subunit | |
| 9 | rs954009 | 1 (0.01) | 44 (0.44) | 55 (0.55) | 10 (0.10) | 26 (0.26) | 63 (0.64) | 1.03 ×10−3 (0.6834) | 8p12 | Downe | 32 893 | FUT10 | Fucosyltransferase 10 (α (1,3) fucosyl-transferase) |
| 10 | rs2016056 | 53 (0.58) | 31 (0.34) | 7 (0.08) | 29 (0.32) | 44 (0.49) | 17 (0.19) | 1.07 ×10−3 (0.6834) | 13q21.2 | ||||
| 11 | rs720010 | 42 (0.42) | 41 (0.41) | 17 (0.17) | 20 (0.20) | 47 (0.47) | 33 (0.33) | 1.11 ×10−3 (0.6834) | 20p12.3 | Intron | BC038533 | IMAGE clone 5165367 | |
| 12 | rs1964875 | 8 (0.09) | 53 (0.58) | 30 (0.33) | 10 (0.11) | 30 (0.32) | 54 (0.57) | 1.12 ×10−3 (0.6834) | 6p11.2 | Intron | PRIM2A | Primase, polypeptide 2A, 58 kDa | |
| 13 | rs950064 | 7 (0.07) | 40 (0.40) | 53 (0.53) | 17 (0.17) | 54 (0.54) | 29 (0.29) | 1.16 ×10−3 (0.6834) | 13q21.2 | ||||
| 14 | rs720651 | 14 (0.14) | 55 (0.56) | 30 (0.30) | 36 (0.36) | 39 (0.39) | 24 (0.24) | 1.22 ×10−3 (0.6834) | 13q12.13 | Intron | ATP8A2 | ATPase, amino-phospholipid transporter-like, Class I, type 8A, member 2 | |
| 15 | rs2100690 | 34 (0.34) | 60 (0.60) | 6 (0.06) | 45 (0.45) | 37 (0.37) | 18 (0.18) | 1.28 ×10−3 (0.6834) | 3p22.1 | Intron | MYRIP | Myosin VIIA and Rab interacting protein | |
| 16 | rs727668 | 59 (0.67) | 20 (0.23) | 9 (0.10) | 67 (0.74) | 23 (0.26) | 0 (0.00) | 1.38 ×10−3 (0.6834) | 1p36.21 | ||||
| 17 | rs1903231 | 30 (0.30) | 63 (0.64) | 6 (0.06) | 36 (0.36) | 43 (0.43) | 21 (0.21) | 1.39 ×10−3 (0.6834) | 11p14.3 | ||||
| 18 | rs2213602f | 45 (0.98) | 1 (0.02) | 0 (0.00) | 24 (0.75) | 8 (0.25) | 0 (0.00) | 1.43 ×10−3 (0.6834) | Xp22.13 | ||||
| 19 | rs724585 | 1 (0.01) | 36 (0.38) | 57 (0.61) | 7 (0.07) | 18 (0.18) | 73 (0.74) | 1.45 ×10−3 (0.6834) | 10q32.32 | Down | 22 761 | PPP1R3C | Protein phosphatase 1, regulatory (inhibitor) subunit 3C |
| Down | 90 924 | HECTD2 | HECT domain containing 2 | ||||||||||
| 20 | rs951299 | 22 (0.22) | 48 (0.48) | 30 (0.30) | 7 (0.07) | 44 (0.44) | 49 (0.49) | 1.55 ×10−3 (0.6834) | 4q23 | Up | 18 149 | TSPAN5 | Transmembrane 4 superfamily member 9 |
| 21 | rs2421057 | 6 (0.06) | 35 (0.35) | 59 (0.59) | 12 (0.12) | 54 (0.54) | 34 (0.34) | 1.56 ×10−3 (0.6834) | 5q33.3 | ||||
| 22 | rs31347 | 96 (0.96) | 4 (0.04) | 0 (0.00) | 81 (0.81) | 17 (0.17) | 2 (0.02) | 1.74 ×10−3 (0.6889) | 5q31.1 | Intron | FSTL4 | Follistatin-like 4 | |
| 23 | rs1587014 | 3 (0.03) | 15 (0.15) | 82 (0.82) | 0 (0.00) | 33 (0.33) | 67 (0.67) | 1.85 ×10−3 (0.6889) | 8p23.2 | ||||
| 24 | rs1343762 | 22 (0.25) | 41 (0.47) | 25 (0.28) | 33 (0.35) | 52 (0.56) | 8 (0.09) | 1.86 ×10−3 (0.6889) | 4q21.23 | Intron | BC005018 | IMAGE clone 3638910 | |
| 25 | rs950995 | 6 (0.06) | 36 (0.36) | 58 (0.58) | 0 (0.00) | 25 (0.25) | 75 (0.75) | 1.94 ×10−3 (0.6889) | 6q25.3 | Intron | TFB1M | Transcription factor B1, mitochondrial | |
Abbreviation: SNP, single nucleotide polymorphism.
Data are from the NetAffx web site; verified and corrected using the USCS Genome Browser.
a
P-value (point-wise) is from likelihood ratio χ2 test, d.f. = 2.
b
SNP location is given when variant is found with 100 000 nucleotides of an annotated gene.
c
Variant is located in the intron of specified gene.
d
Distance the variant is located upstream of the transcription start site of the specified gene.
e
Distance the variant is located downstream of the polyadenylation site of the specified gene.
f
X chromosomal variant (one only from the female group).