TY - JOUR
T1 - A genome-wide association study on copy-number variation identifies a 11q11 loss as a candidate susceptibility variant for colorectal cancer
AU - Fernandez-Rozadilla, C
AU - Cazier, J B
AU - Tomlinson, I
AU - Brea-Fernández, A
AU - Lamas, M J
AU - Baiget, M
AU - López-Fernández, L A
AU - Clofent, J
AU - Bujanda, L
AU - Gonzalez, D
AU - de Castro, L
AU - Hemminki, K
AU - Bessa, X
AU - Andreu, M
AU - Jover, R
AU - Xicola, R
AU - Llor, X
AU - Moreno, V
AU - Castells, A
AU - Castellví-Bel, S
AU - Carracedo, A
AU - Ruiz-Ponte, C
AU - EPICOLON Consortium
PY - 2014/5
Y1 - 2014/5
N2 - Colorectal cancer (CRC) is a complex disease, and therefore its development is determined by the combination of both environmental factors and genetic variants. Although genome-wide association studies (GWAS) of SNP variation have conveniently identified 20 genetic variants so far, a significant proportion of the observed heritability is yet to be explained. Common copy-number variants (CNVs) are one of the most important genomic sources of variability, and hence a potential source to explain part of this missing genetic fraction. Therefore, we have performed a GWAS on CNVs to explore the relationship between common structural variation and CRC development. Phase 1 of the GWAS consisted of 881 cases and 667 controls from a Spanish cohort. Copy-number status was validated by quantitative PCR for each of those common CNVs potentially associated with CRC in phase I. Subsequently, SNPs were chosen as proxies for the validated CNVs for phase II replication (1,342 Spanish cases and 1,874 Spanish controls). Four common CNVs were found to be associated with CRC and were further replicated in Phase II. Finally, we found that SNP rs1944682, tagging a 11q11 CNV, was nominally associated with CRC susceptibility (p value = 0.039; OR = 1.122). This locus has been previously related to extreme obesity phenotypes, which could suggest a relationship between body weight and CRC susceptibility.
AB - Colorectal cancer (CRC) is a complex disease, and therefore its development is determined by the combination of both environmental factors and genetic variants. Although genome-wide association studies (GWAS) of SNP variation have conveniently identified 20 genetic variants so far, a significant proportion of the observed heritability is yet to be explained. Common copy-number variants (CNVs) are one of the most important genomic sources of variability, and hence a potential source to explain part of this missing genetic fraction. Therefore, we have performed a GWAS on CNVs to explore the relationship between common structural variation and CRC development. Phase 1 of the GWAS consisted of 881 cases and 667 controls from a Spanish cohort. Copy-number status was validated by quantitative PCR for each of those common CNVs potentially associated with CRC in phase I. Subsequently, SNPs were chosen as proxies for the validated CNVs for phase II replication (1,342 Spanish cases and 1,874 Spanish controls). Four common CNVs were found to be associated with CRC and were further replicated in Phase II. Finally, we found that SNP rs1944682, tagging a 11q11 CNV, was nominally associated with CRC susceptibility (p value = 0.039; OR = 1.122). This locus has been previously related to extreme obesity phenotypes, which could suggest a relationship between body weight and CRC susceptibility.
KW - Chromosomes, Human, Pair 11
KW - Colorectal Neoplasms
KW - Gene Dosage
KW - Genetic Predisposition to Disease
KW - Genome-Wide Association Study
KW - Humans
KW - Polymorphism, Single Nucleotide
UR - http://www.scopus.com/inward/record.url?eid=2-s2.0-84899650780&partnerID=MN8TOARS
U2 - 10.1007/s00439-013-1390-4
DO - 10.1007/s00439-013-1390-4
M3 - Article
C2 - 24218287
SN - 0340-6717
VL - 133
SP - 525
EP - 534
JO - Human Genetics
JF - Human Genetics
IS - 5
ER -