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  • Nucl. Acids Res.-2005-Simpson-e25

    Rights statement: © The Author 2005. Published by Oxford University Press. All rights reserved The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions@oupjournals.org

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A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays

Research output: Contribution to Journal/Magazine › Journal article › peer-review

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A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays. / Simpson, Claire L.; Knight, Joanne; Butcher, Lee M. et al.
In: Nucleic Acids Research, Vol. 33, No. 3, e25, 2005.

Research output: Contribution to Journal/Magazine › Journal article › peer-review

Harvard

Simpson, CL, Knight, J, Butcher, LM, Hansen, VK, Meaburn, E, Schalkwyk, LC, Craig, IW, Powell, JF, Sham, PC & Al-Chalabi, A 2005, 'A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays', Nucleic Acids Research, vol. 33, no. 3, e25. https://doi.org/10.1093/nar/gni028

APA

Simpson, C. L., Knight, J., Butcher, L. M., Hansen, V. K., Meaburn, E., Schalkwyk, L. C., Craig, I. W., Powell, J. F., Sham, P. C., & Al-Chalabi, A. (2005). A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays. Nucleic Acids Research, 33(3), Article e25. https://doi.org/10.1093/nar/gni028

Vancouver

Simpson CL, Knight J, Butcher LM, Hansen VK, Meaburn E, Schalkwyk LC et al. A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays. Nucleic Acids Research. 2005;33(3):e25. Epub 2005 Feb 8. doi: 10.1093/nar/gni028

Author

Simpson, Claire L. ; Knight, Joanne ; Butcher, Lee M. et al. / A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays. In: Nucleic Acids Research. 2005 ; Vol. 33, No. 3.

Bibtex

@article{aa2fe225bc344591b5766045dd607488,
title = "A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays",
abstract = "Analysing pooled DNA on microarrays is an efficient way to genotype hundreds of individuals for thousands of markers for genome-wide association. Although direct comparison of case and control fluorescence scores is possible, correction for differential hybridization of alleles is important, particularly for rare single nucleotide polymorphisms. Such correction relies on heterozygous fluorescence scores and requires the genotyping of hundreds of individuals to obtain sufficient estimates of the correction factor, completely negating any benefit gained by pooling samples. We explore the effect of differential hybridization on test statistics and provide a solution to this problem in the form of a central resource for the accumulation of heterozygous fluorescence scores, allowing accurate allele frequency estimation at no extra cost.",
keywords = "DNA, Databases, Nucleic Acid, Fluorescence, Gene Frequency, Genotype, Heterozygote, Humans, Internet, Models, Statistical, Oligonucleotide Array Sequence Analysis, Polymorphism, Single Nucleotide, Reproducibility of Results",
author = "Simpson, {Claire L.} and Joanne Knight and Butcher, {Lee M.} and Hansen, {Valerie K.} and Emma Meaburn and Schalkwyk, {Leonard C.} and Craig, {Ian W.} and Powell, {John F.} and Sham, {Pak C.} and Ammar Al-Chalabi",
note = "{\textcopyright} The Author 2005. Published by Oxford University Press. All rights reserved The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions@oupjournals.org",
year = "2005",
doi = "10.1093/nar/gni028",
language = "English",
volume = "33",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "3",

}

RIS

TY - JOUR

T1 - A central resource for accurate allele frequency estimation from pooled DNA genotyped on DNA microarrays

AU - Simpson, Claire L.

AU - Knight, Joanne

AU - Butcher, Lee M.

AU - Hansen, Valerie K.

AU - Meaburn, Emma

AU - Schalkwyk, Leonard C.

AU - Craig, Ian W.

AU - Powell, John F.

AU - Sham, Pak C.

AU - Al-Chalabi, Ammar

N1 - © The Author 2005. Published by Oxford University Press. All rights reserved The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions@oupjournals.org

PY - 2005

Y1 - 2005

N2 - Analysing pooled DNA on microarrays is an efficient way to genotype hundreds of individuals for thousands of markers for genome-wide association. Although direct comparison of case and control fluorescence scores is possible, correction for differential hybridization of alleles is important, particularly for rare single nucleotide polymorphisms. Such correction relies on heterozygous fluorescence scores and requires the genotyping of hundreds of individuals to obtain sufficient estimates of the correction factor, completely negating any benefit gained by pooling samples. We explore the effect of differential hybridization on test statistics and provide a solution to this problem in the form of a central resource for the accumulation of heterozygous fluorescence scores, allowing accurate allele frequency estimation at no extra cost.

AB - Analysing pooled DNA on microarrays is an efficient way to genotype hundreds of individuals for thousands of markers for genome-wide association. Although direct comparison of case and control fluorescence scores is possible, correction for differential hybridization of alleles is important, particularly for rare single nucleotide polymorphisms. Such correction relies on heterozygous fluorescence scores and requires the genotyping of hundreds of individuals to obtain sufficient estimates of the correction factor, completely negating any benefit gained by pooling samples. We explore the effect of differential hybridization on test statistics and provide a solution to this problem in the form of a central resource for the accumulation of heterozygous fluorescence scores, allowing accurate allele frequency estimation at no extra cost.

KW - DNA

KW - Databases, Nucleic Acid

KW - Fluorescence

KW - Gene Frequency

KW - Genotype

KW - Heterozygote

KW - Humans

KW - Internet

KW - Models, Statistical

KW - Oligonucleotide Array Sequence Analysis

KW - Polymorphism, Single Nucleotide

KW - Reproducibility of Results

U2 - 10.1093/nar/gni028

DO - 10.1093/nar/gni028

M3 - Journal article

C2 - 15701753

VL - 33

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 3

M1 - e25

ER -