ArticleGenetics2005
New adjustment factors and sample size calculation in a DNA-pooling experiment with preferential amplification.
Article in Genetics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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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.
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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.
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Who cites it
13 citing papers in PubMed, 20 citations in OpenAlex.
- Identification of ATPAF1 as a novel candidate gene for asthma in children.The Journal of allergy and clinical immunology · 2011Trial
- An integrated analysis tool for analyzing hybridization intensities and genotypes using new-generation population-optimized human arrays.BMC genomics · 2016Article
- Article
- The role of genetic variation near interferon-kappa in systemic lupus erythematosus.Journal of biomedicine & biotechnology · 2010Article
- Article
- Optimal DNA pooling-based two-stage designs in case-control association studies.Human heredity · 2009Article
- Multimarker analysis and imputation of multiple platform pooling-based genome-wide association studies.Bioinformatics (Oxford, England) · 2008Article
- Kernel-based association test.Genetics · 2008Article
- MPDA: microarray pooled DNA analyzer.BMC bioinformatics · 2008Article
- Article
- PDA: Pooled DNA analyzer.BMC bioinformatics · 2006Article
- Constructing the parental linkage phase and the genetic map over distances <1 cM using pooled haploid DNA.Genetics · 2006Article
- A genome-wide study of preferential amplification/hybridization in microarray-based pooled DNA experiments.Nucleic acids research · 2006Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In the post-genome era, disease gene mapping using dense genetic markers has become an important tool for dissecting complex inheritable diseases. Locating disease susceptibility genes using DNA-pooling experiments is a potentially economical alternative to those involving individual genotyping. The foundation of a successful DNA-pooling association test is a precise and accurate estimation of allele frequency. In this article, we propose two new adjustment methods that correct for preferential amplification of nucleotides when estimating the allele frequency of single-nucleotide polymorphisms. We also discuss the effect of sample size when calibrating unequal allelic amplification. We conducted simulation studies to assess the performance of different adjustment procedures and found that our proposed adjustments are more reliable with respect to the estimation bias and root mean square error compared with the current approach. The improved performance not only improves the accuracy and precision of allele frequency estimations but also leads to more powerful disease gene mapping.
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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.