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SNP Fine Mapping

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CD genomics provides SNP fine mapping service for large SNP number and high volume of samples to help you validating and confirming the SNP loci of interest based on a subset of the detected SNPs.

SNP Fine Mapping

SNP fine mapping often follows large-scale whole genome SNP genotyping studies to zoom into potential genes associated with the phenotypes of interest. Fine mapping studies generally involve fewer SNPs and a large sample size. Once a genome wide SNP screening has been done and the potential targets have been identified, fine mapping should be performed. A good genotyping platform for fine mapping should achieve a high call rate for all selected SNPs, without time-consuming assay optimization processes, and at a relatively high multiplex level. Primer extension and allele-specific ligation-based platforms are suitable for fine mapping applications.

We offer several assay types for verifying SNP markers discovered by RADseq, GBS, SNP chips or similar technologies. They include:

MassARRAY SNP Genotyping. A non-fluorescent detection platform utilizing mass spectrometry to accurately and sensitively measure PCR-derived amplicons

KASP Genotyping. A homogeneous, fluorescent, endpoint genotyping technology based on competitive allele-specific PCR and enable bi-allelic scoring of single nucleotide polymorphisms (SNPs) and insertions and deletions (InDels) at specific loci.

Hi-SNPseq. An innovative and scalable method for high-throughput SNP genotyping by combining multiplex PCR and next generation sequencing technology, enabling quantitative multiplex data analysis and accurate SNP calling.

SNaPshot. A primer extension-based method for genotyping known SNP positions through the automated DNA analyzer.

TaqMan SNP Genotyping. A commonly used SNP genotyping method developed by Life Technologies.

These platforms can achieve uniplex (KASP Genotyping, TaqMan SNP Genotyping and SNaPshot) or multiplex (MassARRAY SNP Genotyping and Hi-SNPseq) genotyping. These platforms are also highly flexible, the throughput of SNP number and sample size can be balanced at the users’ discretion, and failed SNP assays can be redesigned and reordered quickly.

SNP Fine Mapping

Our experts offer consultation with you for genotyping strategy determination and experiment planning to meet your specific research needs in the best and most economical way possible.

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45-1 Ramsey Road, Shirley, NY 11967, USA
Tel: 1-631-275-3058
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