Dr. Nygren presented the results of a study performed in collaboration with the Hôpital Paul Brôusse, Hôpitaux Universitaires Paris Sud, Villejuif, France, in which they used the LungCarta™ Panel and the MassARRAY® System to analyze a large set of tumor samples for 213 somatic mutations in 26 previously annotated genes and pathways. The authors found that the MassARRAY System was highly effective for high-throughput screening of genetic lesions in NSCLC. Download a copy of the poster here.
(Data from literature search tool at sequenom.com/literature)
Are you interested in obtaining a DNA methylation profile of your genes of interest including accurate, quantitative, and reproducible mapping? Look no further! More and more MassARRAY System users are taking advantage of EpiTYPER DNA Methylation Analysis to study methylation patterns of their genes of interest and publishing their work (see graph). EpiTYPER is a MassARRAY System application that enables all processing steps after DNA bisulfite treatment to results generation. Obtain individual methylation ratios for CpG units within a target sequence and relative methylation ratios between 10-90% with a standard deviation of only 5%. Don’t have a MassARRAY System - no problem, request your genomics core lab (if they have a MassARRAY System), or one of Sequenom’s Certified Service Providers to perform the study for you! Click here to see the full list of publications on EpiTYPER DNA methylation analysis.
McGill University and Génome Québec Innovation Centre is the first provider that Sequenom has certified under the Sequenom Certified Service Providers (CSP) program. The Center performs services using the MassARRAY System for basic research, translational, clinical, and agricultural genomics research.
Daniel Tessier, Vice-President, Technology Centre at Génome Québec, spoke with us about the Center, which has expertise in custom genotyping, DNA methylation assay design and implementation, rigorous assay validation, and high-throughput sample processing.
Sequenom: What distinguishes the McGill University and Génome Québec Innovation Centre from other genomics core labs?
Daniel Tessier: The Innovation Centre offers a diverse set of genomics technologies, and an integrated strategy for supporting large and small-scale research projects. Our Sequenom CSP team totals more than 15 years of experience with the technology. Our expertise in genotyping, sequencing, and epigenetics coupled to our numerous manufacturers’ certifications and Standard Operating Procedures (SOPs) make us unique in Canada and extremely competitive internationally. The Centre’s client and project management approach, driven by quality and user satisfaction, our flexibility and cost-recovery pricing also make us a very attractive service provider.
Sequenom : Who utilizes your MassARRAY services, and for what types of projects?
Dr. Tessier: Our MassARRAY services are accessible to academic researchers as well as researchers from the private sector. We already support projects in human health, forestry, fisheries and the environment, for either genotyping or methylation analysis.
Sequenom: When do you recommend the MassARRAY System to your clients? How does the platform fit in with all the other services you provide?
Daniel Tessier: We recommend the iPLEX® Gold genotyping technology to researchers with medium-scale projects: candidate-gene, SNP discovery validation or fine-mapping analysis, and EpiTYPER for methylation projects to quantitatively measure methylated regions (CpGs). The MassARRAY System is a great complement to our genome-wide technology services and allows users to validate previously discovered SNPs or methylated regions.
Sequenom: Describe the key advantages of the MassARRAY System over other genetic analysis technologies.
Daniel Tessier: The main advantage of the MassARRAY System is that it allows users to rapidly identify and focus on a specific region of interest for further genotyping or methylation analysis in any species. It is also a cost-effective alternative to high-throughput technologies, with high call rates, precision and reproducibility.
To learn more, contact McGill University and Génome Québec Innovation Centre’s MassARRAY Facility at: http://www.gqinnovationcenter.com/index.aspx.
See full list of Sequenom’s Certified Services Providers
A collaborative team created a SNP genotyping panel and analysis algorithms that provide a simple, scalable, and affordable solution for tracking samples in biorepositories. The panel can be used to determine sample identity, within a large collection, as well as establish a match between normal and disease tissue such as a tumor biopsy. The panel and associated analysis methods served as the basis for Sequenom's new iPLEX PRO Sample ID Panel.
Utilizing two applications of the MassARRAY System, QGE for gene expression and EpiTyper for DNA methylation, Wei et al. investigated allele-specific gene expression (ASE) of the tumor-suppressor DAPK1, and quantified its promoter’s methylation levels. They found correlations that suggest a mechanistic link as well as evidence for a role of ASE in CLL pathogenesis.
Assay Design Suite 1.0 Software (ADS) - Somatic mutation assay designs
In this second ADS webinar tutorial Divya Neelam, Senior Scientist, Sequenom Applications and Technology, will guide you through all the important aspects of designing assays for somatic mutation detection and quantification as well as provide advanced tips and tricks for designing somatic mutation assays. Divya will also demonstrate the latest Typer 4.0.53 software update which automates data analysis for custom somatic mutation Panels.
Register for the ADS Webinars below:
May 29th at 8 AM PST (11 AM EST, 4 PM UK, 5 PM Germany),
and May 29th at 3 PM PST (8 AM Tokyo, 10 AM Sydney/Melbourne)
(Click on the Register link.)
*The MassARRAY System, OncoCarta Panel, LungCarta Panel, iPLEX Gold, iPLEX Pro Sample ID Panel, QGE, EpiTYPER, TYPER software, iPLEX ADME PGx panel, Assay Design Suite and Assay Explorer are for Research Use Only. Not for Use in Diagnostic Procedures.