SNPer™ – Explained
NRGene utilizes its proprietary analytics and vast database to deliver the highest quality genotyping to you in the best cost-effective way.
Here is an example of our maize SNP imputation benchmark results:
Randomly selected SNPs can still generate high accuracy (>99%) and high density (>>100k SNPs) results. When the input SNPs are carefully selected the results will significantly improve.
Exclusive data and capabilities will enable you to stay ahead of your competition
How it Works
Schedule a free consultation meeting with our experts. We will assess your challenges and goals and offer you an optimal solution combining the appropriate features of our genotyping package.
The package includes:
Genome-wide diversity analyses of your germplasm, based on our existing databases of multiple species, will result in selecting your own SNP panel.
We will design an optimal SNP set tailored to your specific case, fit the best genotyping platform and advise you throughout your project.
Using an existing DB and a minimal SNP set, we can impute additional data points per sample to enable improved predictions.
A combination of the above modules creates a full genotyping solution designed specifically to your needs - we will plan, analyze and coordinate the project to provide you with optimum results in a quick and cost-effective manner.
A hypothetical region of 1 million bases containing 17 polymorphisms is illustrated. Different colors indicate various haplotypes found using the full panel of markers. SNPer enables selection of the minimal number of SNPs, capturing most of the underlying diversity, comparing to a random set, chosen by their physical distribution and allele frequency.
Simplifying the Maze of Maize Reducing Operational Costs for More Efficient Breeding
How Low Can You Go?
Reduce breeding costs with an Optimized Genotyping and Analysis Strategy
SeedWorld Innovation Webinar Series:
Next Generation Genotyping
SNPer – Low-Cost Genotyping Using SNP Optimization and Data Imputation
Edward Bruggemann, December 2020
Make Every SNP Count!
Minimize Genotyping Cost and Maximize Data Accuracy with SNPer
Genotyping with ArrayMAGIC:
Genotyping with Ultra-low Density Sequence
Frequently Asked Questions
We have a broad proprietary database for maize, soy, cotton, tomato, canola/rapeseed, pepper, wheat, barley, and potato. We have a significant volume of available data on dozens of other species and have the knowledge and expertise to work on yours.
The set-up, design and consultation steps can take up to a few months. Subsequently, NRGene can provide genotyping results as fast as within 2-3 weeks of a tissue shipment.
Genotyping costs depend on the number of samples and SNP density (# of data points per sample). NRGene offers a competitive price for a high-quality genotyping result.
Most existing 'off the shelf' solutions ignore your specific diversity, thus leaving many of the measured SNPs useless for your purposes (non-informative). Moreover, even informative SNPs can vary in their information content and redundancy as compared with other SNPs in the panel. By capturing your own diversity in full, NRGene can optimize the marker set size with its information and achieve the desired combination of price and quality to drive your breeding program forward.