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| PMID |
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| TITLE |
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| Genomic inflation factors under polygenic inheritance. |
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| ABSTRACT |
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| Population structure, including population stratification and cryptic relatedness, can cause spurious associations in genome-wide association studies (GWAS). Usually, the scaled median or mean test statistic for association calculated from multiple single-nucleotide-polymorphisms across the genome is used to assess such effects, and 'genomic control' can be applied subsequently to adjust test statistics at individual loci by a genomic inflation factor. Published GWAS have clearly shown that there are many loci underlying genetic variation for a wide range of complex diseases and traits, implying that a substantial proportion of the genome should show inflation of the test statistic. Here, we show by theory, simulation and analysis of data that in the absence of population structure and other technical artefacts, but in the presence of polygenic inheritance, substantial genomic inflation is expected. Its magnitude depends on sample size, heritability, linkage disequilibrium structure and the number of causal variants. Our predictions are consistent with empirical observations on height in independent samples of ~4000 and ~133,000 individuals. |
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| DATE PUBLISHED |
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| HISTORY |
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| PUBSTATUS |
PUBSTATUSDATE |
| aheadofprint |
2011/03/16 |
| entrez |
2011/03/17 06:00 |
| pubmed |
2011/03/17 06:00 |
| medline |
2011/10/06 06:00 |
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| AUTHORS |
|
| NAME |
COLLECTIVENAME |
LASTNAME |
FORENAME |
INITIALS |
AFFILIATION |
AFFILIATIONINFO |
| Yang J |
|
Yang |
Jian |
J |
|
Queensland Statistical Genetics Laboratory, Queensland Institute of Medical Research, Brisbane, Queensland, Australia. jian.yang@qimr.edu.au |
| Weedon MN |
|
Weedon |
Michael N |
MN |
|
|
| Purcell S |
|
Purcell |
Shaun |
S |
|
|
| Lettre G |
|
Lettre |
Guillaume |
G |
|
|
| Estrada K |
|
Estrada |
Karol |
K |
|
|
| Willer CJ |
|
Willer |
Cristen J |
CJ |
|
|
| Smith AV |
|
Smith |
Albert V |
AV |
|
|
| Ingelsson E |
|
Ingelsson |
Erik |
E |
|
|
| O'Connell JR |
|
O'Connell |
Jeffrey R |
JR |
|
|
| Mangino M |
|
Mangino |
Massimo |
M |
|
|
| Mägi R |
|
Mägi |
Reedik |
R |
|
|
| Madden PA |
|
Madden |
Pamela A |
PA |
|
|
| Heath AC |
|
Heath |
Andrew C |
AC |
|
|
| Nyholt DR |
|
Nyholt |
Dale R |
DR |
|
|
| Martin NG |
|
Martin |
Nicholas G |
NG |
|
|
| Montgomery GW |
|
Montgomery |
Grant W |
GW |
|
|
| Frayling TM |
|
Frayling |
Timothy M |
TM |
|
|
| Hirschhorn JN |
|
Hirschhorn |
Joel N |
JN |
|
|
| McCarthy MI |
|
McCarthy |
Mark I |
MI |
|
|
| Goddard ME |
|
Goddard |
Michael E |
ME |
|
|
| Visscher PM |
|
Visscher |
Peter M |
PM |
|
|
|
GIANT Consortium |
|
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| INVESTIGATORS |
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| JOURNAL |
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| VOLUME: 19 |
| ISSUE: 7 |
| TITLE: European journal of human genetics : EJHG |
| ISOABBREVIATION: Eur. J. Hum. Genet. |
| YEAR: 2011 |
| MONTH: Jul |
| DAY: |
| MEDLINEDATE: |
| SEASON: |
| CITEDMEDIUM: Internet |
| ISSN: 1476-5438 |
| ISSNTYPE: Electronic |
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| MEDLINE JOURNAL |
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| MEDLINETA: Eur J Hum Genet |
| COUNTRY: England |
| ISSNLINKING: 1018-4813 |
| NLMUNIQUEID: 9302235 |
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| PUBLICATION TYPE |
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| PUBLICATIONTYPE TEXT |
| Journal Article |
| Research Support, N.I.H., Extramural |
| Research Support, Non-U.S. Gov't |
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| COMMENTS AND CORRECTIONS |
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| REFTYPE |
REFSOURCE |
REFPMID |
NOTE |
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|
| Cites |
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19492015 |
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| GRANTS |
|
| GRANTID |
AGENCY |
COUNTRY |
| 090532 |
Wellcome Trust |
United Kingdom |
| AA13320 |
NIAAA NIH HHS |
United States |
| AA13321 |
NIAAA NIH HHS |
United States |
| DA12854 |
NIDA NIH HHS |
United States |
| K05 AA017688 |
NIAAA NIH HHS |
United States |
| R01 DA012854 |
NIDA NIH HHS |
United States |
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| GENERAL NOTE |
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| KEYWORDS |
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| MESH HEADINGS |
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| DESCRIPTORNAME |
QUALIFIERNAME |
| Adolescent |
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| Adult |
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| Computer Simulation |
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| Genome |
genetics |
| Genome-Wide Association Study |
genetics |
| Humans |
genetics |
| Models, Genetic |
genetics |
| Multifactorial Inheritance |
genetics |
| Polymorphism, Single Nucleotide |
genetics |
| Quantitative Trait Loci |
genetics |
| Young Adult |
genetics |
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| SUPPLEMENTARY MESH |
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| GENE SYMBOLS |
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| CHEMICALS |
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| OTHER ID's |
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| OTHERID |
SOURCE |
| PMC3137506 |
NLM |
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