ArticleGenome research2005
A genotyping system capable of simultaneously analyzing >1000 single nucleotide polymorphisms in a haploid genome.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
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- The prognostic value of a seven-lncRNA signature in patients with esophageal squamous cell carcinoma: a lncRNA expression analysis.Journal of translational medicine · 2020Article
- Identification of two microRNA signatures in whole blood as novel biomarkers for diagnosis of nasopharyngeal carcinoma.Journal of translational medicine · 2019Article
- SREBP1, targeted by miR-18a-5p, modulates epithelial-mesenchymal transition in breast cancer via forming a co-repressor complex with Snail and HDAC1/2.Cell death and differentiation · 2019Article
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- RBM24 suppresses cancer progression by upregulating miR-25 to target MALAT1 in nasopharyngeal carcinoma.Cell death & disease · 2016Article
- Analysis of genetic variations in CYP2C9, CYP2C19, CYP2D6 and CYP3A5 genes using oligonucleotide microarray.International journal of clinical and experimental medicine · 2015Article
- Comprehensive profiling of Epstein-Barr virus-encoded miRNA species associated with specific latency types in tumor cells.Virology journal · 2013Article
- The oncogene metadherin modulates the apoptotic pathway based on the tumor necrosis factor superfamily member TRAIL (Tumor Necrosis Factor-related Apoptosis-inducing Ligand) in breast cancer.The Journal of biological chemistry · 2013Article
- Identification of a 7-gene signature that predicts relapse and survival for early stage patients with cervical carcinoma.Medical oncology (Northwood, London, England) · 2012Article
- Allele loss and down-regulation of heparanase gene are associated with the progression and poor prognosis of hepatocellular carcinoma.PloS one · 2012Article
- Rapid high-resolution mapping of balanced chromosomal rearrangements on tiling CGH arrays.The Journal of molecular diagnostics : JMD · 2011Article
- Segmental duplication as one of the driving forces underlying the diversity of the human immunoglobulin heavy chain variable gene region.BMC genomics · 2011Article
- Extensive analysis of D7S486 in primary gastric cancer supports TESTIN as a candidate tumor suppressor gene.Molecular cancer · 2010Article
- LOH analysis of genes around D4S2964 identifies ARD1B as a prognostic predictor of hepatocellular carcinoma.World journal of gastroenterology · 2010Article
- An enhanced single base extension technique for the analysis of complex viral populations.PloS one · 2009Article
- Evidence for a role of the NOS1AP (CAPON) gene in schizophrenia and its clinical dimensions: an association study in a South American population isolate.Human heredity · 2009Article
- Article
- Identification of possible genetic alterations in the breast cancer cell line MCF-7 using high-density SNP genotyping microarray.Journal of carcinogenesis · 2009Article
- Improvements to bead-based oligonucleotide ligation SNP genotyping assays.BioTechniques · 2008Article
Corrections and comments
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Authors and funding
16 authors.
Funding
Abstract
A high-throughput genotyping system for scoring single nucleotide polymorphisms (SNPs) has been developed. With this system, >1000 SNPs can be analyzed in a single assay, with a sensitivity that allows the use of single haploid cells as starting material. In the multiplex polymorphic sequence amplification step, instead of attaching universal sequences to the amplicons, primers that are unlikely to have nonspecific and productive interactions are used. Genotypes of SNPs are then determined by using the widely accessible microarray technology and the simple single-base extension assay. Three SNP panels, each consisting of >1000 SNPs, were incorporated into this system. The system was used to analyze 24 human genomic DNA samples. With 5 ng of human genomic DNA, the average detection rate was 98.22% when single probes were used, and 96.71% could be detected by dual probes in different directions. When single sperm cells were used, 91.88% of the SNPs were detectable, which is comparable to the level that was reached when very few genetic markers were used. By using a dual-probe assay, the average genotyping accuracy was 99.96% for 5 ng of human genomic DNA and 99.95% for single sperm. This system may be used to significantly facilitate large-scale genetic analysis even if the amount of DNA template is very limited or even highly degraded as that obtained from paraffin-embedded cancer specimens, and to make many unpractical research projects highly realistic and affordable.
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