title: High-throughput SNP genotyping on universal bead arrays.
abstract: We have developed a flexible, accurate and highly multiplexed SNP genotyping assay for high-throughput genetic analysis of large populations on a bead array platform. The novel genotyping system combines high assay conversion rate and data quality with >1500 multiplexing, and Array of Arrays formats. Genotyping assay oligos corresponding to specific SNP sequences are each linked to a unique sequence (address) that can hybridize to its complementary strand on universal arrays. The arrays are made of beads located in microwells of optical fiber bundles (Sentrix Array Matrix) or silicon slides (Sentrix BeadChip). The optical fiber bundles are further organized into a matrix that matches a 96-well microtiter plate. The arrays on the silicon slides are multi-channel pipette compatible for loading multiple samples onto a single silicon slide. These formats allow many samples to be processed in parallel. This genotyping system enables investigators to generate approximately 300,000 genotypes per day with minimal equipment requirements and greater than 1.6 million genotypes per day in a robotics-assisted process. With a streamlined and comprehensive assay, this system brings a new level of flexibility, throughput, and affordability to genetic research.
authors.affiliation: Illumina Inc., 9885 Towne Centre Drive, San Diego, CA 92121, USA. rshen@illumina.com
authors.forename: Richard
authors.initials: R
authors.lastname: Shen
authors.forename: Jian-Bing
authors.initials: JB
authors.lastname: Fan
authors.forename: Derek
authors.initials: D
authors.lastname: Campbell
authors.forename: Weihua
authors.initials: W
authors.lastname: Chang
authors.forename: Jing
authors.initials: J
authors.lastname: Chen
authors.forename: Dennis
authors.initials: D
authors.lastname: Doucet
authors.forename: Jo
authors.initials: J
authors.lastname: Yeakley
authors.forename: Marina
authors.initials: M
authors.lastname: Bibikova
authors.forename: Eliza
authors.initials: E
authors.lastname: Wickham Garcia
authors.forename: Celeste
authors.initials: C
authors.lastname: McBride
authors.forename: Frank
authors.initials: F
authors.lastname: Steemers
authors.forename: Francisco
authors.initials: F
authors.lastname: Garcia
authors.forename: Bahram G
authors.initials: BG
authors.lastname: Kermani
authors.forename: Kevin
authors.initials: K
authors.lastname: Gunderson
authors.forename: Arnold
authors.initials: A
authors.lastname: Oliphant
mesh_terms: D019175:DNA Methylation; D020869:Gene Expression Profiling; D005838:Genotype; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D020641:Polymorphism, Single Nucleotide