ArticleNucleic acids research2006
Analysis of pooled DNA samples on high density arrays without prior knowledge of differential hybridization rates.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed.
- Molecular genetics of nicotine dependence and abstinence: whole genome association using 520,000 SNPs.BMC genetics · 2007Trial
- 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
- Explorative results from multistep screening for potential genetic risk loci of Alzheimer's disease in the longitudinal VITA study cohort.Journal of neural transmission (Vienna, Austria : 1996) · 2018Article
- GWAS study using DNA pooling strategy identifies association of variant rs4910623 in OR52B4 gene with anti-VEGF treatment response in age-related macular degeneration.Scientific reports · 2016Article
- Mitochondrial genetic variants identified to be associated with posttraumatic stress disorder.Translational psychiatry · 2015Article
- Article
- Cost-effective genome-wide estimation of allele frequencies from pooled DNA in Atlantic salmon (Salmo salar L.).BMC genomics · 2013Article
- Genome-wide association study for ovarian cancer susceptibility using pooled DNA.Twin research and human genetics : the official journal of the International Society for Twin Studies · 2012Article
- Estimates of array and pool-construction variance for planning efficient DNA-pooling genome wide association studies.BMC medical genomics · 2011Article
- Association of polymorphisms in the hepatocyte growth factor gene promoter with keratoconus.Investigative ophthalmology & visual science · 2011Article
- Association of common variants in the human eyes shut ortholog (EYS) with statin-induced myopathy: evidence for additional functions of EYS.Muscle & nerve · 2011Article
- Article
- Common genetic variants near the Brittle Cornea Syndrome locus ZNF469 influence the blinding disease risk factor central corneal thickness.PLoS genetics · 2010Article
- Rapid assessment of genetic ancestry in populations of unknown origin by genome-wide genotyping of pooled samples.PLoS genetics · 2010Article
- A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Twin research and human genetics : the official journal of the International Society for Twin Studies · 2010Article
- Genome wide association for addiction: replicated results and comparisons of two analytic approaches.PloS one · 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
- Rapid inexpensive genome-wide association using pooled whole blood.Genome research · 2009Article
- The SNPMaP package for R: a framework for genome-wide association using DNA pooling on microarrays.Bioinformatics (Oxford, England) · 2009Article
- Multimarker analysis and imputation of multiple platform pooling-based genome-wide association studies.Bioinformatics (Oxford, England) · 2008Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Array based DNA pooling techniques facilitate genome-wide scale genotyping of large samples. We describe a structured analysis method for pooled data using internal replication information in large scale genotyping sets. The method takes advantage of information from single nucleotide polymorphisms (SNPs) typed in parallel on a high density array to construct a test statistic with desirable statistical properties. We utilize a general linear model to appropriately account for the structured multiple measurements available with array data. The method does not require the use of additional arrays for the estimation of unequal hybridization rates and hence scales readily to accommodate arrays with several hundred thousand SNPs. Tests for differences between cases and controls can be conducted with very few arrays. We demonstrate the method on 384 endometriosis cases and controls, typed using Affymetrix Genechip(c) HindIII 50 K arrays. For a subset of this data there were accurate measures of hybridization rates available. Assuming equal hybridization rates is shown to have a negligible effect upon the results. With a total of only six arrays, the method extracted one-third of the information (in terms of equivalent sample size) available with individual genotyping (requiring 768 arrays). With 20 arrays (10 for cases, 10 for controls), over half of the information could be extracted from this sample.
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Registered trials
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.