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• W3170815078 abstract "Microarrays can be a cost-effective alternative to high-throughput sequencing for discovering novel single-nucleotide polymorphisms (SNPs). Illumina’s iScan platform dominates the market, but their commercial microarray products are designed for model organisms. Further, the platform outputs data in a proprietary format. This cannot be easily converted to human-readable genotypes or be merged with pre-existing data. To address this, we present and validate a novel pipeline to facilitate data analysis from cross-species application of Illumina microarrays. This facilitates the generation of a compatible VCF from iScan data and the merging of this with a second VCF comprising genotypes derived from other samples and sources. Our pipeline includes a custom script, iScanVCFMerge (presented as a Python package), which we validate using iScan data from three great ape genera. We conclude that cross-species application of microarrays can be a rapid, cost-effective approach for SNP discovery in non-model organisms. Our pipeline surmounts the common challenges of integrating iScan genotypes with pre-existing data." @default.
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• W3170815078 date "2021-05-31" @default.
• W3170815078 modified "2023-09-26" @default.
• W3170815078 title "Cross-Species Application of Illumina iScan Microarrays for Cost-Effective, High-Throughput SNP Discovery" @default.
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• W3170815078 doi "https://doi.org/10.3389/fevo.2021.629252" @default.
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