SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery
Single nucleotide polymorphism (SNP) genotyping is playing an increasing role in genome mapping, pharmacogenetic studies, and drug discovery. To date, genome-wide scans and studies involving thousands of SNPs and samples have been hampered by the lack of a system that can perform genotyping with cos...
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| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Taylor & Francis Group
2002-06-01
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| Series: | BioTechniques |
| Online Access: | https://www.future-science.com/doi/10.2144/jun0205 |
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| _version_ | 1850152623902031872 |
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| author | Peter A. Bell Surendra Chaturvedi Craig A. Gelfand Ching Yu Huang Michael Kochersperger Rafael Kopla Frank Modica Mark Pohl Shobha Varde Renbin Zhao Xiaojian Zhao Michael T. Boyce-Jacino |
| author_facet | Peter A. Bell Surendra Chaturvedi Craig A. Gelfand Ching Yu Huang Michael Kochersperger Rafael Kopla Frank Modica Mark Pohl Shobha Varde Renbin Zhao Xiaojian Zhao Michael T. Boyce-Jacino |
| author_sort | Peter A. Bell |
| collection | DOAJ |
| description | Single nucleotide polymorphism (SNP) genotyping is playing an increasing role in genome mapping, pharmacogenetic studies, and drug discovery. To date, genome-wide scans and studies involving thousands of SNPs and samples have been hampered by the lack of a system that can perform genotyping with cost-effective throughput, accuracy, and reliability. To address this need, Orchid has developed an automated, ultra-high throughput system, SNPstream® UHT, which uses multiplexed PCR in conjunction with our next generation SNP-IT™ tag array single base extension genotyping technology. The system employs oligonucleotide microarrays manufactured in a 384-well format on a novel glass-bottomed plate. Multiplexed PCR and genotyping are performed in homogeneous reactions, and assay results are read by direct two-color fluorescence on the SNPstream UHT Array Imager. The system’s flexibility enables large projects involving thousands of SNPs and thousands of samples as well as small projects that have hundreds of SNPs and hundreds of samples to be done cost effectively. We have successfully demonstrated this system in greater than 1 000 000 genotyping assays with >96% of samples giving genotypes with >99% accuracy. |
| format | Article |
| id | doaj-art-e634eb2cb00b46959b6ed45cea9aceee |
| institution | OA Journals |
| issn | 0736-6205 1940-9818 |
| language | English |
| publishDate | 2002-06-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | BioTechniques |
| spelling | doaj-art-e634eb2cb00b46959b6ed45cea9aceee2025-08-20T02:25:55ZengTaylor & Francis GroupBioTechniques0736-62051940-98182002-06-01326SS70S7710.2144/jun0205SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug DiscoveryPeter A. Bell0Surendra Chaturvedi1Craig A. Gelfand2Ching Yu Huang3Michael Kochersperger4Rafael Kopla5Frank Modica6Mark Pohl7Shobha Varde8Renbin Zhao9Xiaojian Zhao10Michael T. Boyce-Jacino111Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USA1Orchid BioSciences, Orchid Life Sciences, Princeton, NJ, USASingle nucleotide polymorphism (SNP) genotyping is playing an increasing role in genome mapping, pharmacogenetic studies, and drug discovery. To date, genome-wide scans and studies involving thousands of SNPs and samples have been hampered by the lack of a system that can perform genotyping with cost-effective throughput, accuracy, and reliability. To address this need, Orchid has developed an automated, ultra-high throughput system, SNPstream® UHT, which uses multiplexed PCR in conjunction with our next generation SNP-IT™ tag array single base extension genotyping technology. The system employs oligonucleotide microarrays manufactured in a 384-well format on a novel glass-bottomed plate. Multiplexed PCR and genotyping are performed in homogeneous reactions, and assay results are read by direct two-color fluorescence on the SNPstream UHT Array Imager. The system’s flexibility enables large projects involving thousands of SNPs and thousands of samples as well as small projects that have hundreds of SNPs and hundreds of samples to be done cost effectively. We have successfully demonstrated this system in greater than 1 000 000 genotyping assays with >96% of samples giving genotypes with >99% accuracy.https://www.future-science.com/doi/10.2144/jun0205 |
| spellingShingle | Peter A. Bell Surendra Chaturvedi Craig A. Gelfand Ching Yu Huang Michael Kochersperger Rafael Kopla Frank Modica Mark Pohl Shobha Varde Renbin Zhao Xiaojian Zhao Michael T. Boyce-Jacino SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery BioTechniques |
| title | SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery |
| title_full | SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery |
| title_fullStr | SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery |
| title_full_unstemmed | SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery |
| title_short | SNPstream® UHT: Ultra-High Throughput SNP Genotyping for Pharmacogenomics and Drug Discovery |
| title_sort | snpstream r uht ultra high throughput snp genotyping for pharmacogenomics and drug discovery |
| url | https://www.future-science.com/doi/10.2144/jun0205 |
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