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UK10K RARE CHD

In the UK10K project we propose a series of complementary genetic approaches to find new low frequency/rare variants contributing to disease phenotypes. These will be based on obtaining the genome wide sequence of 4000 samples from the TwinsUK and ALSPAC cohorts (at 6x sequence coverage), and the exome sequence (protein coding regions and related conserved sequence) of 6000 samples selected for extreme phenotypes. Our studies will focus primarily on cardiovascular-related quantitative traits, obesity and related metabolic traits, neurodevelopmental disorders and a limited number of extreme clinical phenotypes that will provide proof-of-concept for future familial trait sequencing. We will analyse directly quantitative traits in the cohorts and the selected traits in the extreme samples, and also use imputation down to 0.1% allele frequency to extend the analyses to further sample sets with genome wide genotype data. In each case we will investigate indels and larger structural variants as well as SNPs, and use statistical methods that combine rare variants in a locus or pathway as well as single-variant approaches. The CHD (congenital heart disease) samples will be part of the “rare disease” group, and will undergo exome sequencing.For further information with regard to this cohort please contact Shoumo Bhattacharya (shoumo@me.com).

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID Description Technology Samples
EGAD00001000178 Illumina Genome Analyzer II Illumina HiSeq 2000 46
EGAD00001000192 Illumina Genome Analyzer II Illumina HiSeq 2000 46
EGAD00001000210 Illumina Genome Analyzer II Illumina HiSeq 2000 124
EGAD00001000294 Illumina Genome Analyzer II Illumina HiSeq 2000 124
EGAD00001000413 Illumina Genome Analyzer II Illumina HiSeq 2000 125
Publications Citations
Rare variants in NR2F2 cause congenital heart defects in humans.
Am J Hum Genet 94: 2014 574-585
89
The UK10K project identifies rare variants in health and disease.
Nature 526: 2015 82-90
581
Distinct genetic architectures for syndromic and nonsyndromic congenital heart defects identified by exome sequencing.
Nat Genet 48: 2016 1060-1065
212