Collective effects of common SNPs and risk prediction in lung cancer
Lung cancer is the leading cause of cancer deaths in both men and women in the US. While most sporadic lung cancer cases are related to environmental factors such as smoking, genetic susceptibility may also play an important role and a number of lung cancer associated single-nucleotide polymorphisms...
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| Published in | Heredity Vol. 121; no. 6; pp. 537 - 547 |
|---|---|
| Main Authors | , , , |
| Format | Journal Article |
| Language | English |
| Published |
England
Springer Nature B.V
01.12.2018
Springer International Publishing |
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| Abstract | Lung cancer is the leading cause of cancer deaths in both men and women in the US. While most sporadic lung cancer cases are related to environmental factors such as smoking, genetic susceptibility may also play an important role and a number of lung cancer associated single-nucleotide polymorphisms (SNPs) have been identified although many remain to be found. The collective effects of genome-wide minor alleles of common SNPs, or the minor allele content (MAC) in an individual, have been linked with quantitative variations of complex traits and diseases. Here we studied MAC in lung cancer using previously published SNPs data sets (US and Finland samples) and found higher MAC in cases relative to matched controls. A set of 5400 SNPs with MA (MAF < 0.5) more common in cases (P < 0.08) and linkage disequilibrium (LD) r
= 0.3 was found to have the best predictive accuracy. These results identify higher MAC in lung cancer susceptibility and provide a meaningful genetic method to identify those at risk of lung cancer. |
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| AbstractList | Lung cancer is the leading cause of cancer deaths in both men and women in the US. While most sporadic lung cancer cases are related to environmental factors such as smoking, genetic susceptibility may also play an important role and a number of lung cancer associated single-nucleotide polymorphisms (SNPs) have been identified although many remain to be found. The collective effects of genome-wide minor alleles of common SNPs, or the minor allele content (MAC) in an individual, have been linked with quantitative variations of complex traits and diseases. Here we studied MAC in lung cancer using previously published SNPs data sets (US and Finland samples) and found higher MAC in cases relative to matched controls. A set of 5400 SNPs with MA (MAF < 0.5) more common in cases (P < 0.08) and linkage disequilibrium (LD) r2 = 0.3 was found to have the best predictive accuracy. These results identify higher MAC in lung cancer susceptibility and provide a meaningful genetic method to identify those at risk of lung cancer. Lung cancer is the leading cause of cancer deaths in both men and women in the US. While most sporadic lung cancer cases are related to environmental factors such as smoking, genetic susceptibility may also play an important role and a number of lung cancer associated single-nucleotide polymorphisms (SNPs) have been identified although many remain to be found. The collective effects of genome-wide minor alleles of common SNPs, or the minor allele content (MAC) in an individual, have been linked with quantitative variations of complex traits and diseases. Here we studied MAC in lung cancer using previously published SNPs data sets (US and Finland samples) and found higher MAC in cases relative to matched controls. A set of 5400 SNPs with MA (MAF < 0.5) more common in cases ( P < 0.08) and linkage disequilibrium (LD) r 2 = 0.3 was found to have the best predictive accuracy. These results identify higher MAC in lung cancer susceptibility and provide a meaningful genetic method to identify those at risk of lung cancer. Lung cancer is the leading cause of cancer deaths in both men and women in the US. While most sporadic lung cancer cases are related to environmental factors such as smoking, genetic susceptibility may also play an important role and a number of lung cancer associated single-nucleotide polymorphisms (SNPs) have been identified although many remain to be found. The collective effects of genome-wide minor alleles of common SNPs, or the minor allele content (MAC) in an individual, have been linked with quantitative variations of complex traits and diseases. Here we studied MAC in lung cancer using previously published SNPs data sets (US and Finland samples) and found higher MAC in cases relative to matched controls. A set of 5400 SNPs with MA (MAF < 0.5) more common in cases (P < 0.08) and linkage disequilibrium (LD) r = 0.3 was found to have the best predictive accuracy. These results identify higher MAC in lung cancer susceptibility and provide a meaningful genetic method to identify those at risk of lung cancer. |
| Author | Zhu, Zuobin Lei, Xiaoyun Yuan, Dejian Huang, Shi |
| Author_xml | – sequence: 1 givenname: Xiaoyun surname: Lei fullname: Lei, Xiaoyun organization: Center for Medical Genetics, School of Life Sciences, Central South University, 110 Xiangya Road, Changsha, Hunan, 410078, China – sequence: 2 givenname: Dejian surname: Yuan fullname: Yuan, Dejian organization: Department of Birth Health and Heredity, Liuzhou Municipal Maternity and Child Healthcare Hospital, Liuzhou, 545000, China – sequence: 3 givenname: Zuobin surname: Zhu fullname: Zhu, Zuobin organization: Department of Genetics, Xuzhou Medical University, Xuzhou, Jiangsu, 221004, China – sequence: 4 givenname: Shi surname: Huang fullname: Huang, Shi email: huangshi@sklmg.edu.cn organization: Center for Medical Genetics, School of Life Sciences, Central South University, 110 Xiangya Road, Changsha, Hunan, 410078, China. huangshi@sklmg.edu.cn |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/29523840$$D View this record in MEDLINE/PubMed |
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| CitedBy_id | crossref_primary_10_7717_peerj_9983 crossref_primary_10_1038_s10038_022_01105_1 crossref_primary_10_1177_1559325818815019 crossref_primary_10_1038_s41598_020_73976_3 crossref_primary_10_1097_CEJ_0000000000000671 crossref_primary_10_1016_j_ygeno_2020_01_015 |
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| DOI | 10.1038/s41437-018-0063-4 |
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| Snippet | Lung cancer is the leading cause of cancer deaths in both men and women in the US. While most sporadic lung cancer cases are related to environmental factors... |
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| SubjectTerms | Alleles Cancer Case-Control Studies Environmental factors Finland Genetic Predisposition to Disease Genomes Health risk assessment Humans Linkage disequilibrium Lung cancer Lung Neoplasms - genetics Polymorphism, Single Nucleotide Predictions Principal Component Analysis Single-nucleotide polymorphism Smoking United States |
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| Title | Collective effects of common SNPs and risk prediction in lung cancer |
| URI | https://www.ncbi.nlm.nih.gov/pubmed/29523840 https://www.proquest.com/docview/2130793179/abstract/ https://pubmed.ncbi.nlm.nih.gov/PMC6221896 |
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