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Whole-Exome Sequencing in Czech Patients with Neurogenetic Diseases.
- Source :
-
Genetic testing and molecular biomarkers [Genet Test Mol Biomarkers] 2020 May; Vol. 24 (5), pp. 264-273. Date of Electronic Publication: 2020 Apr 07. - Publication Year :
- 2020
-
Abstract
- Aims: Genomic studies play a major role in variant observations between and within populations and in identifying causal relationships between genotypes and phenotypes. Analyses using databases such as gnomAD can provide insight into the frequencies of alleles in large populations. There have been reports that detail such frequencies for several countries and ethnic groups, but as yet, there are no such datasets for the Czech population. Patients and Methods: Whole-exome sequencing (WES) data from 222 individuals from the Czech Republic were analyzed by The Genome Analysis Toolkit best practices pipeline. These data were annotated with the ANNOVAR tool, and the allele frequencies were computed. Results: We developed a database that contains 300,111 variants in 17,512 genes. It is accessible through a simple web query available at prot2hg.com/variantbrowser. Gene-based analyses identified those genes that are most tolerant to variants in our population. Second, allele frequencies in our population were compared to the gnomAD database and groups of variants frequent in our population, but ultra-rare in gnomAD as a whole were identified. Conclusion: This tool should be useful for detecting local variants in the Czech population of patients with neurogenetic diseases.
- Subjects :
- Adult
Alleles
Czech Republic
Female
Gene Frequency genetics
Genetic Variation genetics
Genomics methods
Genotype
High-Throughput Nucleotide Sequencing methods
Humans
Male
Phenotype
Sequence Analysis, DNA methods
Exome Sequencing methods
Databases, Genetic
Nervous System Diseases genetics
Neurodegenerative Diseases genetics
Subjects
Details
- Language :
- English
- ISSN :
- 1945-0257
- Volume :
- 24
- Issue :
- 5
- Database :
- MEDLINE
- Journal :
- Genetic testing and molecular biomarkers
- Publication Type :
- Academic Journal
- Accession number :
- 32255705
- Full Text :
- https://doi.org/10.1089/gtmb.2019.0232