Comprehensive Research Synopsis and Systematic Meta-Analyses in Parkinson's Disease Genetics: The PDGene Database

Details

• Alternative Title:
  PLoS Genet
• Personal Author:
  Lill, Christina M. ; Roehr, Johannes T. ; McQueen, Matthew B. ; Kavvoura, Fotini K. ; Bagade, Sachin ; Schjeide, Brit-Maren M. ; Schjeide, Leif M. ; Meissner, Esther ; Zauft, Ute ; Allen, Nicole C. ; Liu, Tian ; Schilling, Marcel ; Anderson, Kari J. ; Beecham, Gary ; Berg, Daniela ; Biernacka, Joanna M. ; Brice, Alexis ; DeStefano, Anita L. ; Do, Chuong B. ; Eriksson, Nicholas ; Factor, Stewart A. ; Farrer, Matthew J. ; Foroud, Tatiana ; Gasser, Thomas ; Hamza, Taye ; Hardy, John A. ; Heutink, Peter ; Hill-Burns, Erin M. ; Klein, Christine ; Latourelle, Jeanne C. ; Maraganore, Demetrius M. ; Martin, Eden R. ; Martinez, Maria ; Myers, Richard H. ; Nalls, Michael A. ; Pankratz, Nathan ; Payami, Haydeh ; Satake, Wataru ; Scott, William K. ; Sharma, Manu ; Singleton, Andrew B. ; Stefansson, Kari ; Toda, Tatsushi ; Tung, Joyce Y. ; Vance, Jeffery ; Wood, Nick W. ; Zabetian, Cyrus P. ; Young, Peter ; Tanzi, Rudolph E. ; Khoury, Muin J. ; Zipp, Frauke ; Lehrach, Hans ; Ioannidis, John P. A. ; Bertram, Lars
• Corporate Authors:
  23andMe, The Genetic Epidemiology of Parkinson's Disease (GEO-PD) Consortium ; The International Parkinson's Disease Genomics Consortium (IPDGC) ; The Parkinson's Disease GWAS Consortium ; The Wellcome Trust Case Control Consortium 2 (WTCCC2)
• Description:
  More than 800 published genetic association studies have implicated dozens of potential risk loci in Parkinson's disease (PD). To facilitate the interpretation of these findings, we have created a dedicated online resource, PDGene, that comprehensively collects and meta-analyzes all published studies in the field. A systematic literature screen of -27,000 articles yielded 828 eligible articles from which relevant data were extracted. In addition, individual-level data from three publicly available genome-wide association studies (GWAS) were obtained and subjected to genotype imputation and analysis. Overall, we performed meta-analyses on more than seven million polymorphisms originating either from GWAS datasets and/or from smaller scale PD association studies. Meta-analyses on 147 SNPs were supplemented by unpublished GWAS data from up to 16,452 PD cases and 48,810 controls. Eleven loci showed genome-wide significant (P < 5 × 10(-8)) association with disease risk: BST1, CCDC62/HIP1R, DGKQ/GAK, GBA, LRRK2, MAPT, MCCC1/LAMP3, PARK16, SNCA, STK39, and SYT11/RAB25. In addition, we identified novel evidence for genome-wide significant association with a polymorphism in ITGA8 (rs7077361, OR 0.88, P  =  1.3 × 10(-8)). All meta-analysis results are freely available on a dedicated online database (www.pdgene.org), which is cross-linked with a customized track on the UCSC Genome Browser. Our study provides an exhaustive and up-to-date summary of the status of PD genetics research that can be readily scaled to include the results of future large-scale genetics projects, including next-generation sequencing studies.
• Subjects:
  Databases, Genetic Genome, Human Genome-Wide Association Study Humans Internet Parkinson Disease Polymorphism, Single Nucleotide
• Source:
  PLoS Genet. 2012; 8(3).
• Document Type:
  Journal Article
• Volume:
  8
• Issue:
  3
• Collection(s):
  CDC Public Access
• Main Document Checksum:
  urn:sha256:8b6212f14377af9f887b2000ebd6111069e7a187f1e1f38031e72fe2cad48453
• Download URL:
  https://stacks.cdc.gov/view/cdc/8103/cdc_8103_DS1.pdf
• File Type:
  [PDF - 692.77 KB ]