epiGBS: reference-free reduced representation bisulfite sequencing.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 26855363.
- Also identified by DOI 10.1038/nmeth.3763.
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Abstract
We describe epiGBS, a reduced representation bisulfite sequencing method for cost-effective exploration and comparative analysis of DNA methylation and genetic variation in hundreds of samples de novo. This method uses genotyping by sequencing of bisulfite-converted DNA followed by reliable de novo reference construction, mapping, variant calling, and distinction of single-nucleotide polymorphisms (SNPs) versus methylation variation (software is available at https://github.com/thomasvangurp/epiGBS). The output can be loaded directly into a genome browser for visualization and into RnBeads for analysis of differential methylation.
Medical subject headings
- DNA Methylation
- Epigenesis, Genetic
- Genome, Human
- High-Throughput Nucleotide Sequencing
- Polymorphism, Single Nucleotide
- Sequence Analysis, DNA
- Software