ArticleBioinformatics (Oxford, England)2010
GWAS analyzer: integrating genotype, phenotype and public annotation data for genome-wide association study analysis.
Article in Bioinformatics (Oxford, England), 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 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.
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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
9 citing papers in PubMed, 30 citations in OpenAlex.
- Genome-wide association study reveals the genetic basis of brace root angle and diameter in maize.Frontiers in genetics · 2022Article
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- dbVOR: a database system for importing pedigree, phenotype and genotype data and exporting selected subsets.BMC bioinformatics · 2015Article
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- Functional genetic screen of human diversity reveals that a methionine salvage enzyme regulates inflammatory cell death.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- GWASdb: a database for human genetic variants identified by genome-wide association studies.Nucleic acids research · 2012Article
- Statistical Optimization of Pharmacogenomics Association Studies: Key Considerations from Study Design to Analysis.Current pharmacogenomics and personalized medicine · 2011Article
- Article
- SNPTransformer: a lightweight toolkit for genome-wide association studies.Genomics, proteomics & bioinformatics · 2010Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
motivationGenome-wide association studies are beginning to elucidate how our genetic differences contribute to susceptibility and severity of disease. While computational tools have previously been developed to support various aspects of genome-wide association studies, there is currently a need for informatics solutions that facilitate the integration of data from multiple sources.
resultsHere we present GWAS Analyzer, a database driven web-based tool that integrates genotype and phenotype data, association analysis results and genomic annotations from multiple public resources. GWAS Analyzer contains features for browsing these interrelated data, exploring phenotypic values by family or genotype, and filtering association results based on multiple criteria. The utility of the tool has been demonstrated by a genome-wide association study of human in vitro susceptibility to bacterial infection. GWAS Analyzer facilitated management of large sets of phenotype and genotype data, analysis of phenotypic variation and heritability, and most importantly, generation of a refined set of candidate single nucleotide polymorphisms (SNPs). The tool revealed a SNP that was experimentally validated to be associated with increased cell death among Salmonella infected HapMap cell lines.
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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.