| Literature DB >> 24936650 |
Guangdie Yang1, Junjun Chen1, Fei Xu1, Zhang Bao1, Yake Yao1, Jianying Zhou1.
Abstract
OBJECTIVE: The purpose of this study was to explore the association between the TNF-α rs1800629 (also refers as -308G/A) polymorphism and asthma susceptibility.Entities:
Mesh:
Substances:
Year: 2014 PMID: 24936650 PMCID: PMC4061054 DOI: 10.1371/journal.pone.0099962
Source DB: PubMed Journal: PLoS One ISSN: 1932-6203 Impact factor: 3.240
Figure 1Study flow chart of identification, inclusion, and exclusion.
Characteristics of the case-control studies included in meta-analysis.
| Study | Year | Country | Ethnicity | Age group | Atopic | Case | Control | Genotyping | Quality |
| status | (n) | (n) | method | score | |||||
| Louis(10) | 2000 | Belgium | Caucasian | Adult | Mix | 95 | 98 | Primer specific | 11 |
| PCR | |||||||||
| Winchester(C)(11) | 2000 | UK | Caucasian | Children | NA | 20 | 416 | RELF | 7 |
| Winchester(A)(11) | 2000 | UK | SA | Children | NA | 6 | 275 | RELF | 7 |
| Buckova(12) | 2002 | Czech | Caucasian | Mix | Atopic | 151 | 155 | PCR-RFLP | 10 |
| Witte(13) | 2002 | USA | Mix | Adult | NA | 235 | 273 | TaqMan assay | 9 |
| Gao JM(14) | 2003 | China | EA | Adult | NA | 125 | 96 | PCR-RFLP | 7 |
| Beghe(15) | 2004 | Italy | Caucasian | Adult | Mix | 142 | 45 | ARMS-PCR | 7 |
| Guo YL(16) | 2004 | China | EA | Adult | NA | 48 | 21 | RFLP | 6 |
| Liu DF(17) | 2004 | China | EA | Children | NA | 113 | 126 | PCR-RFLP | 6 |
| Shin(18) | 2004 | Korea | EA | Mix | Mix | 534 | 170 | MAPA | 10 |
| Wang TN(19) | 2004 | China | EA | Children | Mix | 191 | 129 | RFLP | 5 |
| Zhai FZ(20) | 2004 | China | EA | Adult | Mix | 64 | 80 | PCR-RFLP | 7 |
| Bilolikar(21) | 2005 | UK | Mix | Children | NA | 108 | 149 | PCR-SSP | 8 |
| Gupta(22) | 2005 | India | SA | NA | NA | 155 | 211 | ARMS-PCR | 7 |
| Zhao HJ(23) | 2005 | China | EA | NA | NA | 50 | 80 | PCR-RFLP | 6 |
| Sharma(N)(5) | 2006 | India | SA | Adult | Atopic | 248 | 252 | Snapshot | 8 |
| Sharma(W)(5) | 2006 | India | SA | Adult | Atopic | 240 | 224 | Snapshot | 8 |
| Tolgyesi(24) | 2006 | Hungary | Caucasian | Children | Mix | 144 | 174 | PCR-RFLP | 12 |
| Kamali(25) | 2007 | Iran | WA | Mix | NA | 203 | 113 | Allele specific | 8 |
| PCR | |||||||||
| Mak(26) | 2007 | China | EA | Adult | Mix | 292 | 292 | PCR-RFLP | 12 |
| Kim(27) | 2008 | Korea | EA | Children | Mix | 715 | 240 | PCR-RFLP | 10 |
| Kumar(28) | 2008 | India | SA | Mix | Mix | 123 | 100 | ARMS-PCR | 8 |
| Trajkov(29) | 2008 | Macedonia | Caucasian | Adult | NA | 74 | 301 | PCR-SSP | 9 |
| Aytekin(30) | 2009 | Turkey | WA | Children | Mix | 46 | 67 | PCR | 6 |
| Mahdaviani(31) | 2009 | Iran | WA | Mix | NA | 27 | 137 | PCR-SSP | 8 |
| Wang JY(32) | 2009 | China | EA | Children | Mix | 448 | 510 | TaqMan assay | 8 |
| Cui LY(33) | 2009 | China | EA | Adult | NA | 100 | 104 | PCR-RFLP | 5 |
| Dhaouadi(34) | 2011 | France | Caucasian | Mix | Mix | 106 | 168 | PCR-RFLP | 5 |
| Jiffri(35) | 2011 | Egypt | WA | Children | Mix | 120 | 120 | PCR-RFLP | 8 |
| Murk(36) | 2011 | USA | Mix | Children | Atopic | 100 | 487 | TaqMan assay | 10 |
| Jia N(37) | 2012 | China | EA | Children | NA | 91 | 89 | PCR-RFLP | 8 |
| Zheng(38) | 2012 | China | EA | Children | NA | 198 | 110 | PCR-RFLP | 6 |
| Li Ying(39) | 2013 | China | EA | Adult | NA | 65 | 50 | PCR-RFLP | 6 |
| Shaker(40) | 2013 | Egypt | WA | Children | Mix | 100 | 100 | PCR-RFLP | 7 |
Abbreviations: ARMS, amplification refractory mutation system; EA, East Asian; MAPA, multiplex automated primer extension analysis; NA, not available; PCR, polymerase chain reaction; RFLP, restriction fragment length polymorphism; SA, South Asian; SSP, sequence-specific primers; WA, West Asian;
Distribution of TNF-α genotype among patients and controls.
| Studies | Asthma | Control | HWE | ||||
| GG | GA | AA | GG | GA | AA | p value | |
| Louis | 64 | 31 | 0 | 69 | 27 | 2 | 0.732 |
| Winchester(C) | 9 | 9 | 2 | 283 | 116 | 17 | 0.249 |
| Winchester(A) | 4 | 2 | 0 | 239 | 33 | 3 | 0.139 |
| Buckova | 102 | 46 | 3 | 116 | 38 | 1 | 0.259 |
| Witte | 164 | 67 | 4 | 212 | 55 | 6 | 0.288 |
| Gao JM | 47 | 52 | 26 | 44 | 41 | 11 | 0.759 |
| Beghe | 108 | 33 | 1 | 36 | 8 | 1 | 0.503 |
| Guo YL | 4 | 28 | 16 | 7 | 11 | 3 | 0.690 |
| Liu DF | 98 | 15 | 0 | 104 | 22 | 0 | 0.283 |
| Shin | 482 | 50 | 2 | 131 | 37 | 2 | 0.733 |
| Wang TN | 140 | 49 | 2 | 111 | 18 | 0 | 0.394 |
| Zhai FZ | 44 | 14 | 6 | 67 | 12 | 1 | 0.587 |
| Bilolikar | 50 | 51 | 7 | 94 | 46 | 9 | 0.301 |
| Gupta | 116 | 36 | 3 | 178 | 32 | 1 | 0.731 |
| Zhao HJ | 45 | 5 | 0 | 71 | 9 | 0 | 0.594 |
| Sharma (N) | 189 | 58 | 1 | 217 | 33 | 2 | 0.552 |
| Sharma (W) | 186 | 53 | 1 | 190 | 32 | 2 | 0.617 |
| Tolgyesi | 99 | 41 | 4 | 122 | 47 | 5 | 0.854 |
| Kamali | 175 | 28 | 0 | 103 | 9 | 1 | 0.137 |
| Mak | 244 | 47 | 1 | 250 | 40 | 2 | 0.774 |
| Kim | 614 | 95 | 6 | 219 | 21 | 0 | 0.479 |
| Kumar | 86 | 35 | 2 | 82 | 18 | 0 | 0.323 |
| Trajkov | 64 | 9 | 1 | 231 | 66 | 4 | 0.770 |
| Aytekin | 35 | 11 | 0 | 51 | 16 | 0 | 0.267 |
| Mahdaviani | 10 | 17 | 0 | 98 | 39 | 0 | 0.052 |
| Wang JY | 345 | 100 | 3 | 409 | 94 | 7 | 0.549 |
| Cui LY | 92 | 6 | 2 | 89 | 13 | 2 | 0.088 |
| Dhaouadi | 69 | 31 | 6 | 122 | 42 | 4 | 0.865 |
| Jiffri | 87 | 33 | 0 | 105 | 15 | 0 | 0.465 |
| Murk | 78 | 20 | 2 | 359 | 113 | 15 | 0.103 |
| Jia N | 76 | 14 | 1 | 82 | 7 | 0 | 0.699 |
| Zheng | 168 | 25 | 5 | 93 | 17 | 0 | 0.380 |
| Li ying | 45 | 16 | 4 | 43 | 6 | 1 | 0.191 |
| Shaker | 32 | 60 | 8 | 66 | 30 | 4 | 0.800 |
Abbreviations: HWE, Hardy-Weinberg equilibrium.
Summary odds ratios for relationship between the TNF-αr s1800629polymorphism and asthma risk.
| No. of study | sample size | Hypothesis tests | Heterogeneity tests | ||||||
| Polymorphisms | study | cases/controls | OR(95% CI) |
|
| Model |
|
| |
| G vs. A | Overall | 34 | 10954/11924 | 0.72(0.61–0.84) | 4.07 | <0.0001 | R | 65 | <0.00001 |
| GG vs. AA(OR1) | Overall | 34 | 4290/4799 | 0.60(0.45–0.82) | 3.29 | 0.001 | F | 13 | 0.26 |
| GA vs. AA(OR2) | Overall | 34 | 1306/1269 | 0.88(0.65–1.20) | 0.82 | 0.41 | F | 0 | 0.83 |
| GG vs. GA(OR3) | Overall | 34 | 5358/5856 | 0.70(0.58–0.84) | 3.77 | 0.0002 | R | 66 | <0.00001 |
| GA+AA vs. GG | Overall | 34 | 5477/5962 | 1.46(1.21–1.76) | 3.97 | <0.0001 | R | 68 | <0.00001 |
| GA+AA vs. GG | Adult | 11 | 1436/1544 | 1.43(1.07–1.91) | 2.38 | 0.02 | R | 55 | 0.01 |
| GA+AA vs. GG | Children | 14 | 2400/2992 | 1.57(1.19–2.06) | 3.2 | 0.001 | R | 64 | 0.0005 |
| GA+AA vs. GG | Atopic | 7 | 1587/1628 | 1.51(1.24–1.83) | 4.18 | <0.0001 | F | 26 | 0.23 |
| GA+AA vs. GG | Non-atopic | 3 | 259/510 | 1.23(0.79–1.91) | 0.89 | 0.37 | F | 32 | 0.23 |
| GA+AA vs. GG | Caucasians | 7 | 723/1357 | 1.18(0.95–1.48) | 1.48 | 0.14 | F | 35 | 0.16 |
| GA+AA vs. GG | Asians | 24 | 4302/3696 | 1.58(1.23–2.03) | 3.57 | 0.0004 | R | 73 | <0.00001 |
| GA+AA vs. GG | EA | 14 | 3034/2097 | 1.27(0.91–1.77) | 1.4 | 0.16 | R | 74 | <0.00001 |
| GA+AA vs. GG | WA | 5 | 496/537 | 2.47(1.48–4.12) | 3.46 | 0.0005 | R | 58 | 0.05 |
| GA+AA vs. GG | SA | 5 | 772/1062 | 1.83(1.42–2.36) | 4.68 | <0.00001 | F | 0 | 0.94 |
Abbreviations: EA, East Asian; F, fixed-effect model; OR, odds ratio; R, random-effect model; SA, South Asian; vs, versus; WA, West Asian.
Figure 2Meta-analysis for the association between asthma risk and the TNF-α rs1800629 polymorphism.
Figure 3One-way sensitivity analysis for the TNF-α rs1800629 polymorphism with asthma risk.
Figure 4Begg’s funnel plot for publication bias on asthma risk and the TNF-α rs1800629 polymorphism.
67]. However, GWAS studies also have deficiencies. At the first step of GWAS, significant SNP are screened in the whole genome among a small scale population in order to reduce the cost, for that it couldn’t have enough capability to discover all SNPs associated with a disease. So we supposed that some SNPs of TNF-α region derived from GWAS may be potentially associated with risk of asthma, expanding the screen criteria at the first step of GWAS may improve the power of test [68], to generate more SNPs associated with asthma, possibly including TNF-α rs1800629.