Publication Date
2-1-2020
Journal
Cancer Epidemiology, Biomarkers & Prevention
DOI
10.1158/1055-9965.EPI-19-0887
PMID
31826912
PMCID
PMC7007362
PubMedCentral® Posted Date
8-1-2020
PubMedCentral® Full Text Version
Author MSS
Published Open-Access
yes
Keywords
Cell Adhesion Molecules, Neuronal, Chromosomes, Human, Pair 12, Chromosomes, Human, Pair 4, Chromosomes, Human, Pair 7, Extracellular Matrix Proteins, Female, Genetic Predisposition to Disease, Haplotypes, Humans, Lod Score, Lung Neoplasms, Male, Medical History Taking, Pedigree, Phosphoproteins, Polymorphism, Single Nucleotide, Protein Tyrosine Phosphatase, Non-Receptor Type 13, Quantitative Trait Loci, RNA Polymerase III, Risk Factors, Sialoglycoproteins, Exome Sequencing, Lung cancer, genetic linkage, family studies, whole exome sequencing, cancer risk
Abstract
BACKGROUND: Lung cancer kills more people than any other cancer in the United States. In addition to environmental factors, lung cancer has genetic risk factors as well, though the genetic etiology is still not well understood. We have performed whole exome sequencing on 262 individuals from 28 extended families with a family history of lung cancer.
METHODS: Parametric genetic linkage analysis was performed on these samples using two distinct analyses-the lung cancer only (LCO) analysis, where only patients with lung cancer were coded as affected, and the all aggregated cancers (AAC) analysis, where other cancers seen in the pedigree were coded as affected.
RESULTS: The AAC analysis yielded a genome-wide significant result at rs61943670 in POLR3B at 12q23.3. POLR3B has been implicated somatically in lung cancer, but this germline finding is novel and is a significant expression quantitative trait locus in lung tissue. Interesting genome-wide suggestive haplotypes were also found within individual families, particularly near SSPO at 7p36.1 in one family and a large linked haplotype spanning 4q21.3–28.3 in a different family. The 4q haplotype contains potential causal rare variants in DSPP at 4q22.1 and PTPN13 at 4q21.3.
CONCLUSIONS: Regions on 12q, 7p, and 4q are linked to increased cancer risk in highly aggregated lung cancer families, 12q across families and 7p and 4q within a single family.
IMPACT: Functional work on these genes is planned for future studies and if confirmed would lead to potential biomarkers for risk in cancer.
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