Genotyping

Illumina* iScan*

As an Illumina Certified Service Provider (CSPro) for Infinium Genotyping, Beckman Coulter Genomics employs the iScan System, Illumina’s next-generation scanner that provides significantly greater throughput for genotyping studies. The iScan can handle even the highest density multi-sample arrays quickly, with the ability to scan BeadChips in minutes rather than hours to produce high quality data.

Beckman Coulter Genomics supports a variety of applications including:

• Genotyping and CNV analysis
• Methylation analysis
• Software for integrated data analysis
• Standard panels, project- and custom-focused arrays

While delivering:

• High data quality - Generate industry-leading data with Illumina’s powerful assay technology and leading-edge scanner
• High sample throughput - Scan thousands of samples per day
• Scalability - Access many applications, multiple formats, and automation options for easy scale-up

Affymetrix GeneChip*

Beckman Coulter Genomics utilizes the Affymetrix GeneChip Scanner 3000 7G. This system combines high throughput with high resolution scanning to support many genotyping applications using GeneChip SNP Arrays, including Molecular Inversion Probe (MIP) technology, Copy Number and Cytogenetics Analysis and Genome-wide Human SNP Arrays.

Using the GeneChip Scanner 3000 7G, Beckman Coulter Genomics can deliver:

• Whole genome scans
• SNP fine mapping studies
• Rapid turnaround time
• High throughput and capacity
• Research or regulatory-compliant services

Sequenom MassARRAY*

For medium throughput genotyping applications, Beckman Coulter Genomics leverages the Sequenom MassARRAY system, a powerful technology for identifying genetic variations. The MassARRAY system combines proprietary primer extension technology with MALDI-TOF mass spectrometry analysis for a flexible, high-throughput DNA analysis solution.

The benefits of Beckman Coulter Genomics’ Sequenom platform services include:

• Choice of SNP fine mapping studies, candidate gene analyses, or association studies
• Flexibility to investigate any combination of SNPs
• Excellent reproducibility
• High-throughput results without compromising accuracy
• Custom assay design, development and validation

Applied Biosystems TaqMan*

The robust, reliable and efficient TaqMan technology is ideal for smaller customized panels and targeted SNP genotyping solutions, as well as projects where fast turn-around times are required. Beckman Coulter Genomics offers more than 80 in-house developed TaqMan SNP genotyping assays and TaqMan-based Allelic Copy Number Assays (AlCoNA*) for highly reliable gene dose determination of individual genes. Customers can choose between in-house developed assays or TaqMan Pre-designed/Inventoried SNP Genotyping assays from ABI. Both are available as validated GLP-compliant assays.

Sanger Sequencing

Sequence Analysis is often the best choice for analyzing individual SNPs and other types of variants, especially when the context sequence prevents other types of assays, and is also used for validation of genotyping assays on other platforms. Sequence analysis is the method of choice for the analysis of difficult target regions, e.g. repeats, insertions/deletions or highly variable and highly homologous genomic regions.

PCR/Gels

The definitive platform for analyzing small numbers of SNPs, especially in a GLP or CLIA-compliant environment, is the combination of PCR^† amplification and gel-based analysis (e.g. RFLP assays). An enduring standard for regulatory-compliant genotyping projects, Beckman Coulter Genomics’ RFLP assays are the most common platform choice for SNP profiling in support of both prospective and retrospective clinical trials.

Using RFLP genotyping technologies, Beckman Coulter Genomics can deliver:

• SNP profiling
• High rates of accuracy
• Rapid turnaround time
• Research, GLP, or CLIA-compliant services

Agilent aCGH Platform

In support of genome-wide surveying of genetic variation, as well as analysis of highly localized gene copy number changes, Beckman Coulter Genomics offers assays based on Agilent Human and Mouse Genome CGH Microarrays. Coupled with the Agilent 2100 Bioanalyzer and the Agilent MR-2 DNA Microarray Scanner, the Agilent Genome CGH Microarrays provide genome-wide coverage with an emphasis on the most commonly studied genomic coding regions and cancer-related genes.

Using the Agilent Genome CGH Microarray platform, Beckman Coulter Genomics enables:

• Detection of single copy and homozygous deletions
• Identification of low and high level amplifications
• Probe selection biased towards cancer-related genes
• Choice of human or mouse genome assays
• Need for only 1.1 µg genomic DNA