Title |
In silico analysis identifies novel restriction enzyme combinations that expand reduced representation bisulfite sequencing CpG coverage
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Published in |
BMC Research Notes, August 2014
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DOI | 10.1186/1756-0500-7-534 |
Pubmed ID | |
Authors |
Daniel B Martinez-Arguelles, Sunghoon Lee, Vassilios Papadopoulos |
Abstract |
Epigenetics is the study of gene expression changes that are not caused by changes in the deoxyribonucleic acid (DNA) sequence. DNA methylation is an epigenetic mark occurring in C-phosphate-G sites (CpGs) that leads to local or regional gene expression changes. Reduced-representation bisulfite sequencing (RRBS) is a technique that is used to ascertain the DNA methylation of millions of CpGs at single-nucleotide resolution. The genomic coverage of RRBS is given by the restriction enzyme combination used during the library preparation and the throughput capacity of the next-generation sequencer, which is used to read the generated libraries. The four-nucleotide cutters, MspI and TaqalphaI, are restriction enzymes commonly used in RRBS that, when combined, achieve ~12% genomic coverage. The increase in throughput of next-generation sequencers allows for novel combinations of restriction enzymes that provide higher CpG coverage. |
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Mendeley readers
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Researcher | 8 | 19% |
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