ArticleBMC genomics2005
Genotyping DNA pools on microarrays: tackling the QTL problem of large samples and large numbers of SNPs.
Article in BMC genomics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed.
- Establishment and Polymorphism Analysis of SNP Markers in the Gynogenic Blunt Snout Bream.Biology · 2026Article
- Comparative study of population genomic approaches for mapping colony-level traits.PLoS computational biology · 2020Article
- Identification of novel alleles associated with insulin resistance in childhood obesity using pooled-DNA genome-wide association study approach.International journal of obesity (2005) · 2018Article
- A genome-wide association study of essential hypertension in an Australian population using a DNA pooling approach.Molecular genetics and genomics : MGG · 2017Article
- Copy number variation analysis reveals additional variants contributing to endometriosis development.Journal of assisted reproduction and genetics · 2017Article
- Comparison of genotyping using pooled DNA samples (allelotyping) and individual genotyping using the affymetrix genome-wide human SNP array 6.0.BMC genomics · 2013Article
- Utility of the pooling approach as applied to whole genome association scans with high-density Affymetrix microarrays.BMC research notes · 2010Article
- Article
- A genome-wide association study identifies multiple loci associated with mathematics ability and disability.Genes, brain, and behavior · 2010Article
- A genome-wide association study of social and non-social autistic-like traits in the general population using pooled DNA, 500 K SNP microarrays and both community and diagnosed autism replication samples.Behavior genetics · 2010Article
- Validation of pooled genotyping on the Affymetrix 500 k and SNP6.0 genotyping platforms using the polynomial-based probe-specific correction.BMC genetics · 2009Article
- Facilitating functional annotation of chicken microarray data.BMC bioinformatics · 2009Article
- Identification of susceptibility genes for complex diseases using pooling-based genome-wide association scans.Human genetics · 2009Article
- A comparison of association statistics between pooled and individual genotypes.Human heredity · 2009Article
- Molecular genetics of addiction and related heritable phenotypes: genome-wide association approaches identify "connectivity constellation" and drug target genes with pleiotropic effects.Annals of the New York Academy of Sciences · 2008Review
- Multimarker analysis and imputation of multiple platform pooling-based genome-wide association studies.Bioinformatics (Oxford, England) · 2008Article
- Quantitative trait locus association scan of early reading disability and ability using pooled DNA and 100K SNP microarrays in a sample of 5760 children.Molecular psychiatry · 2008Article
- The nature of nurture: a genomewide association scan for family chaos.Behavior genetics · 2008Article
- Genome-wide quantitative trait locus association scan of general cognitive ability using pooled DNA and 500K single nucleotide polymorphism microarrays.Genes, brain, and behavior · 2008Article
- MPDA: microarray pooled DNA analyzer.BMC bioinformatics · 2008Article
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
backgroundQuantitative trait locus (QTL) theory predicts that genetic influence on complex traits involves multiple genes of small effect size. To detect QTL associations of small effect size, large samples and systematic screens of thousands of DNA markers are required. An efficient solution is to genotype case and control DNA pools using SNP microarrays. We demonstrate that this is practical using DNA pools of 100 individuals.
resultsUsing standard microarray protocols for the Affymetrix GeneChip Mapping 10 K Array Xba 131, we show that relative allele signal (RAS) values provide a quantitative index of allele frequencies in pooled DNA that correlate 0.986 with allele frequencies for 104 SNPs that were genotyped individually for 100 individuals. The sensitivity of the assay was demonstrated empirically in a spiking experiment in which 15% and 20% of one individual's DNA was added to a DNA pool.
conclusionWe conclude that this approach, which we call SNP-MaP (SNP microarrays and pooling), is rapid, cost effective and promises to be a valuable initial screening method in the hunt for QTLs.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.