A Cost-effective, High-throughput, Highly Accurate Genotyping Method for Outbred Populations DOI
Denghui Chen, Apurva S. Chitre, Khai-Minh H Nguyen

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: July 18, 2024

Affordable sequencing and genotyping methods are essential for large scale genome-wide association studies. While microarrays reference panels imputation available human subjects, non-human model systems often lack such options. Our lab previously demonstrated an efficient cost-effective method to genotype heterogeneous stock rats using double-digest genotyping-by-sequencing. However, low-coverage whole-genome offers alternative that has several advantages. Here, we describe a cost-effective, high-throughput, high-accuracy N/NIH can use combination of data generated by genotyping-by-sequencing more recently whole-genome-sequencing data. Using from 5,745 (mean 0.21x coverage) 8,760 0.27x coverage), impute 7.32 million bi-allelic single-nucleotide polymorphisms with concordance rate >99.76% compared high-coverage 33.26x subset the same individuals. results demonstrate feasibility or accurate genotyping, techniques may also be useful other genetic studies in subjects.

Language: Английский

A Cost-effective, High-throughput, Highly Accurate Genotyping Method for Outbred Populations DOI
Denghui Chen, Apurva S. Chitre, Khai-Minh H Nguyen

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: July 18, 2024

Affordable sequencing and genotyping methods are essential for large scale genome-wide association studies. While microarrays reference panels imputation available human subjects, non-human model systems often lack such options. Our lab previously demonstrated an efficient cost-effective method to genotype heterogeneous stock rats using double-digest genotyping-by-sequencing. However, low-coverage whole-genome offers alternative that has several advantages. Here, we describe a cost-effective, high-throughput, high-accuracy N/NIH can use combination of data generated by genotyping-by-sequencing more recently whole-genome-sequencing data. Using from 5,745 (mean 0.21x coverage) 8,760 0.27x coverage), impute 7.32 million bi-allelic single-nucleotide polymorphisms with concordance rate >99.76% compared high-coverage 33.26x subset the same individuals. results demonstrate feasibility or accurate genotyping, techniques may also be useful other genetic studies in subjects.

Language: Английский

Citations

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