ArticleGenome research2001
Toward high-throughput genotyping: dynamic and automatic software for manipulating large-scale genotype data using fluorescently labeled dinucleotide markers.
Article in Genome research, 2001. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- The effect of type 1 IFN on human aortic endothelial cell function in vitro: relevance to systemic lupus erythematosus.Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research · 2014Article
- SNPflow: a lightweight application for the processing, storing and automatic quality checking of genotyping assays.PloS one · 2013Article
- GWAS analyzer: integrating genotype, phenotype and public annotation data for genome-wide association study analysis.Bioinformatics (Oxford, England) · 2010Article
- SNPLims: a data management system for genome wide association studies.BMC bioinformatics · 2008Article
- Bivariate whole genome linkage analyses for total body lean mass and BMD.Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research · 2008Article
- Is a gene important for bone resorption a candidate for obesity? An association and linkage study on the RANK (receptor activator of nuclear factor-kappaB) gene in a large Caucasian sample.Human genetics · 2006Article
- Laboratory Information Management Software for genotyping workflows: applications in high throughput crop genotyping.BMC bioinformatics · 2006Article
- Genetic linkage of human height is confirmed to 9q22 and Xq24.Human genetics · 2006Article
- Linkage exclusion mapping with bone size in 79 Caucasian pedigrees.Journal of bone and mineral metabolism · 2006Article
- CA repeat polymorphism of the TNFR2 gene is not associated with bone mineral density in two independent Caucasian populations.Journal of bone and mineral metabolism · 2006Article
- T.I.M.S: TaqMan Information Management System, tools to organize data flow in a genotyping laboratory.BMC bioinformatics · 2005Article
- The (GT)n polymorphism and haplotype of the COL1A2 gene, but not the (AAAG)n polymorphism of the PTHR1 gene, are associated with bone mineral density in Chinese.Human genetics · 2005Article
- Estrogen receptor alpha gene relationship with peak bone mass and body mass index in Chinese nuclear families.Journal of human genetics · 2005Article
- The (CA)n polymorphism of the TNFR2 gene is associated with peak bone density in Chinese nuclear families.Journal of human genetics · 2005Article
- GeneLink: a database to facilitate genetic studies of complex traits.BMC genomics · 2004Article
- A genome-wide linkage scan for bone mineral density in an extended sample: evidence for linkage on 11q23 and Xq27.Journal of medical genetics · 2004Article
- ActionMap: A web-based software that automates loci assignments to framework maps.Nucleic acids research · 2003Article
- A genomewide linkage scan for quantitative-trait loci for obesity phenotypes.American journal of human genetics · 2002Article
- Mutation patterns at dinucleotide microsatellite loci in humans.American journal of human genetics · 2002Article
- A tale of two genotypes: consistency between two high-throughput genotyping centers.Genome research · 2002Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To efficiently manipulate large amounts of genotype data generated with fluorescently labeled dinucleotide markers, we developed a Microsoft database management system, named. offers several advantages. First, it accommodates the dynamic nature of the accumulations of genotype data during the genotyping process; some data need to be confirmed or replaced by repeat lab procedures. By using, the raw genotype data can be imported easily and continuously and incorporated into the database during the genotyping process that may continue over an extended period of time in large projects. Second, almost all of the procedures are automatic, including autocomparison of the raw data read by different technicians from the same gel, autoadjustment among the allele fragment-size data from cross-runs or cross-platforms, autobinning of alleles, and autocompilation of genotype data for suitable programs to perform inheritance check in pedigrees. Third, provides functions to track electrophoresis gel files to locate gel or sample sources for any resultant genotype data, which is extremely helpful for double-checking consistency of raw and final data and for directing repeat experiments. In addition, the user-friendly graphic interface of renders processing of large amounts of data much less labor-intensive. Furthermore, has built-in mechanisms to detect some genotyping errors and to assess the quality of genotype data that then are summarized in the statistic reports automatically generated by. The can easily handle >500,000 genotype data entries, a number more than sufficient for typical whole-genome linkage studies. The modules and programs we developed for the can be extended to other database platforms, such as Microsoft SQL server, if the capability to handle still greater quantities of genotype data simultaneously is desired.
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