Analysis and Application of European Genetic Substructure Using 300 K SNP Information

@article{citeulike:2409625, abstract = {European population genetic substructure was examined in a diverse set of \&\#62;1,000 individuals of European descent, each genotyped with \&\#62;300 K SNPs. Both STRUCTURE and principal component analyses (PCA) showed the largest division/principal component (PC) differentiated northern from southern European ancestry. A second PC further separated Italian, Spanish, and Greek individuals from those of Ashkenazi Jewish ancestry as well as distinguishing among northern European populations. In separate analyses of northern European participants other substructure relationships were discerned showing a west to east gradient. Application of this substructure information was critical in examining a real dataset in whole genome association (WGA) analyses for rheumatoid arthritis in European Americans to reduce false positive signals. In addition, two sets of European substructure ancestry informative markers (ESAIMs) were identified that provide substantial substructure information. The results provide further insight into European population genetic substructure and show that this information can be used for improving error rates in association testing of candidate genes and in replication studies of WGA scans.}, author = {Tian, Chao and Plenge, Robert M. and Ransom, Michael and Lee, Annette and Villoslada, Pablo and Selmi, Carlo and Klareskog, Lars and Pulver, Ann E. and Qi, Lihong and Gregersen, Peter K. and Seldin, Michael F. }, citeulike-article-id = {2409625}, doi = {10.1371/journal.pgen.0040004}, journal = {PLoS Genetics}, keywords = {caucasians, genomics, population, substructure}, month = {January}, number = {1}, pages = {e4+}, posted-at = {2008-02-21 23:03:03}, priority = {2}, title = {Analysis and Application of European Genetic Substructure Using 300 K SNP Information}, url = {http://dx.doi.org/10.1371/journal.pgen.0040004}, volume = {4}, year = {2008} }

TY - JOUR ID - citeulike:2409625 L3 - citeulike-article-id:2409625 TI - Analysis and Application of European Genetic Substructure Using 300 K SNP Information JF - PLoS Genetics VL - 4 IS - 1 SP - e4 N2 - European population genetic substructure was examined in a diverse set of >1,000 individuals of European descent, each genotyped with >300 K SNPs. Both STRUCTURE and principal component analyses (PCA) showed the largest division/principal component (PC) differentiated northern from southern European ancestry. A second PC further separated Italian, Spanish, and Greek individuals from those of Ashkenazi Jewish ancestry as well as distinguishing among northern European populations. In separate analyses of northern European participants other substructure relationships were discerned showing a west to east gradient. Application of this substructure information was critical in examining a real dataset in whole genome association (WGA) analyses for rheumatoid arthritis in European Americans to reduce false positive signals. In addition, two sets of European substructure ancestry informative markers (ESAIMs) were identified that provide substantial substructure information. The results provide further insight into European population genetic substructure and show that this information can be used for improving error rates in association testing of candidate genes and in replication studies of WGA scans. KW - caucasians KW - genomics KW - population KW - substructure AU - Tian, Chao AU - Plenge, Robert AU - Ransom, Michael AU - Lee, Annette AU - Villoslada, Pablo AU - Selmi, Carlo AU - Klareskog, Lars AU - Pulver, Ann AU - Qi, Lihong AU - Gregersen, Peter AU - Seldin, Michael PY - 2008/01/01/ UR - http://dx.doi.org/10.1371/journal.pgen.0040004 ER -