The Personal Genome Project Canada: findings from whole genome sequences of the inaugural 56 participants.

作者: Miriam S Reuter , Susan Walker , Bhooma Thiruvahindrapuram , Joe Whitney , Iris Cohn

DOI: 10.1503/CMAJ.171151

关键词: Copy-number variationGeneticsWhole genome sequencingGenomeGenetic variationPersonal Genome ProjectGenotypeAlleleHuman genomeBiology

摘要: BACKGROUND: The Personal Genome Project Canada is a comprehensive public data resource that integrates whole genome sequencing and health information. We describe genomic variation identified in the initial recruitment cohort of 56 volunteers. METHODS: Volunteers were screened for eligibility provided informed consent open sharing. Using blood DNA, we performed all possible classes DNA variants. A genetic counsellor explained implication results to each participant. RESULTS: Whole first participants 207 662 805 sequence variants 27 494 copy number variations. analyzed prioritized disease-associated set (n = 1606 variants) according standardized guidelines, interpreted 19 14 (25%) as having obvious implications. Six these (e.g., BRCA1 or mosaic loss an X chromosome) pathogenic likely pathogenic. Seven risk factors cancer, cardiovascular neurobehavioural conditions. Four other — associated with cardiac neurodegenerative phenotypes remained uncertain significance because discrepancies among databases. also large structural chromosome aberration mitochondrial variant. There 172 recessive disease alleles 5 individuals carried mutations cystic fibrosis). Pharmacogenomics analyses revealed another 3.9 potentially relevant genotypes per individual. INTERPRETATION: Our spectrum potential impact 25% participants. When considering pharmacologic relevance, had medically findings. Although access mostly limited research, can provide specific novel information major care.

参考文章(70)
Ronald B. J. Glass, Kenneth N. Rosenbaum, Detection of eight BRCA1 mutations in 10 breast/ovarian cancer families, including 1 family with male breast cancer. American Journal of Human Genetics. ,vol. 57, pp. 1- 5 ,(1995) , 10.1002/AJMG.1320570102
Jodi Warman Chardon, AC Smith, J Woulfe, E Pena, K Rakhra, C Dennie, C Beaulieu, Lijia Huang, J Schwartzentruber, C Hawkins, MB Harms, S Dojeiji, M Zhang, FORGE Canada Consortium, J Majewski, DE Bulman, KM Boycott, DA Dyment, None, LIMS2 mutations are associated with a novel muscular dystrophy, severe cardiomyopathy and triangular tongues. Clinical Genetics. ,vol. 88, pp. 558- 564 ,(2015) , 10.1111/CGE.12561
Solena Le Scouarnec, Naina Bhasin, Claude Vieyres, Thomas J. Hund, Shane R. Cunha, Olha Koval, Celine Marionneau, Biyi Chen, Yuejin Wu, Sophie Demolombe, Long-Sheng Song, Hervé Le Marec, Vincent Probst, Jean-Jacques Schott, Mark E. Anderson, Peter J. Mohler, Dysfunction in ankyrin-B-dependent ion channel and transporter targeting causes human sinus node disease. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 105, pp. 15617- 15622 ,(2008) , 10.1073/PNAS.0805500105
D. B. Savage, I. McFarlane, I. Barroso, M. A. Soos, A. Powlson, E. L. Thomas, J. D. Bell, I. Scobie, P. E. Belchetz, W. F. Kelly, D. J. Halsall, A. J. Schafer, S. O’Rahilly, Familial partial lipodystrophy associated with compound heterozygosity for novel mutations in the LMNA gene Diabetologia. ,vol. 47, pp. 753- 756 ,(2004) , 10.1007/S00125-004-1360-4
Pardeep Kaurah, Andrée MacMillan, Niki Boyd, Janine Senz, Alessandro De Luca, Nicki Chun, Gianpaolo Suriano, Sonya Zaor, Lori Van Manen, Cathy Gilpin, Sarah Nikkel, Mary Connolly-Wilson, Scott Weissman, Wendy S. Rubinstein, Courtney Sebold, Robert Greenstein, Jennifer Stroop, Dwight Yim, Benoit Panzini, Wendy McKinnon, Marc Greenblatt, Debrah Wirtzfeld, Daniel Fontaine, Daniel Coit, Sam Yoon, Daniel Chung, Gregory Lauwers, Antonio Pizzuti, Carlos Vaccaro, Maria Ana Redal, Carla Oliveira, Marc Tischkowitz, Sylviane Olschwang, Steven Gallinger, Henry Lynch, Jane Green, James Ford, Paul Pharoah, Bridget Fernandez, David Huntsman, Founder and Recurrent CDH1 Mutations in Families With Hereditary Diffuse Gastric Cancer JAMA. ,vol. 297, pp. 2360- 2372 ,(2007) , 10.1001/JAMA.297.21.2360
Sarah E Ali-Khan, Abdallah S Daar, Cheryl Shuman, Peter N Ray, Stephen W Scherer, None, Whole genome scanning: resolving clinical diagnosis and management amidst complex data. Pediatric Research. ,vol. 66, pp. 357- 363 ,(2009) , 10.1203/PDR.0B013E3181B0CBD8
Arkadiusz Piotrowski, Jing Xie, Ying F Liu, Andrzej B Poplawski, Alicia R Gomes, Piotr Madanecki, Chuanhua Fu, Michael R Crowley, David K Crossman, Linlea Armstrong, Dusica Babovic-Vuksanovic, Amanda Bergner, Jaishri O Blakeley, Andrea L Blumenthal, Molly S Daniels, Howard Feit, Kathy Gardner, Stephanie Hurst, Christine Kobelka, Chung Lee, Rebecca Nagy, Katherine A Rauen, John M Slopis, Pim Suwannarat, Judith A Westman, Andrea Zanko, Bruce R Korf, Ludwine M Messiaen, None, Germline loss-of-function mutations in LZTR1 predispose to an inherited disorder of multiple schwannomas Nature Genetics. ,vol. 46, pp. 182- 187 ,(2014) , 10.1038/NG.2855
M. L. Gonzalez-Garay, A. L. McGuire, S. Pereira, C. T. Caskey, Personalized genomic disease risk of volunteers Proceedings of the National Academy of Sciences of the United States of America. ,vol. 110, pp. 16957- 16962 ,(2013) , 10.1073/PNAS.1315934110
Paul W.A. Reymer, Björn E. Groenemeyer, Eric Gagné, Li Miao, Elianne E.G. Appelman, Jaap C. Seidel, Daan Kromhout, Saskia M. Bijvoet, Karin van de Oever, Taco Bruin, Michael R. Hayden, John J. P.Kastelein, A frequently occurring mutation in the lipoprotein lipase gene (Asn291Ser) contributes to the expression of familial combined hyperlipidemia Human Molecular Genetics. ,vol. 4, pp. 1543- 1549 ,(1995) , 10.1093/HMG/4.9.1543