SNP Microarray Genotyping & Copy Number AnalysisGLP-level SNP genotyping can be performed on the Affymetrix Genome-wide Human SNP array 5.0 and 6.0 or on the Affymetrix 100K and 500K mapping sets. We also offer the Affymetrix Mouse Diversity Genotyping Array and GeneChip Rice 44K SNP Genotyping Array. As little as 250 ng of gDNA is needed per array. Applications for this service include:
Copy Number Data Analysis: When performing copy number analysis, the data are first normalized by Robust Multi-array Analysis (RMA), followed by interrogation by Principal Components Analysis (PCA). Genomic Segmentation or the Hidden Markov Model (HMM) is then used to find out regions of amplifications and deletions. Depending on the design of the experiment, if the samples are paired, a copy number spreadsheet will be generated. Otherwise copy number and allele ratio spreadsheets are created by comparing your data with an existing reference file. Our bioinformatics specialists will analyze the detected segments to identify the average copy number in each sample, as well as the copy number changes (amplified, deleted, unchanged) within the same sample. The core step of the copy number analysis is to create a list of shared regions. Our bioinformatics team will use the power of statistics and math, combined with our specialized knowledge and experience, to create a list of deleted and amplified regions across the genome. Finally, all overlapping genes to these copy number variation regions will be marked by Transcript ID and Gene symbol. All overlap SNPs identified will also be marked by an rs number if required. Please feel free to contact us with any questions by completing a no obligation Quote Request. Additional Genotyping & Copy Number Analysis Services and Technologies Offered by SeqWright |
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