Genomics

Dataset Information

0

EGAS00001000462-sc-20170511 - samples


ABSTRACT: The offspring of first cousin marriages have ~6% of their genome autozygous, i.e. homozygous identical by descent, or even more if there was further consanguinity in their ancestry. In the UK there are large populations with very high first cousin marriage rates of 20-50%. Sequencing the exomes of a sample of these individuals has the potential both to support genetic health programmes in these populations, and to provide genetic research information about rare loss of function mutations. This pilot study based on existing cohort samples from the Born In Bradford study will identify homozygous individuals for almost all variants down to an allele frequency around 1%, plus individuals carrying hundreds of new homozygous rare loss-of-function variants, and will support development of community relations and ethics for a wider study currently being designed. The data deposited in the EGA consist of low coverage whole exome sequencing on these samples. This dataset contains all the data available for this study on 2017-05-11.

PROVIDER: EGAD00001003329 | EGA |

REPOSITORIES: EGA

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Publications

Health and population effects of rare gene knockouts in adult humans with related parents.

Narasimhan Vagheesh M VM   Hunt Karen A KA   Mason Dan D   Baker Christopher L CL   Karczewski Konrad J KJ   Karczewski Konrad J KJ   Barnes Michael R MR   Barnett Anthony H AH   Bates Chris C   Bellary Srikanth S   Bockett Nicholas A NA   Giorda Kristina K   Griffiths Christopher J CJ   Hemingway Harry H   Jia Zhilong Z   Kelly M Ann MA   Khawaja Hajrah A HA   Lek Monkol M   McCarthy Shane S   McEachan Rosie R   O'Donnell-Luria Anne A   Paigen Kenneth K   Parisinos Constantinos A CA   Sheridan Eamonn E   Southgate Laura L   Tee Louise L   Thomas Mark M   Xue Yali Y   Schnall-Levin Michael M   Petkov Petko M PM   Tyler-Smith Chris C   Maher Eamonn R ER   Trembath Richard C RC   MacArthur Daniel G DG   Wright John J   Durbin Richard R   van Heel David A DA  

Science (New York, N.Y.) 20160303 6284


Examining complete gene knockouts within a viable organism can inform on gene function. We sequenced the exomes of 3222 British adults of Pakistani heritage with high parental relatedness, discovering 1111 rare-variant homozygous genotypes with predicted loss of function (knockouts) in 781 genes. We observed 13.7% fewer homozygous knockout genotypes than we expected, implying an average load of 1.6 recessive-lethal-equivalent loss-of-function (LOF) variants per adult. When genetic data were link  ...[more]

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