China
Africa
Explore chapters and articles related to this topic
“Omics”
Published in Kirk A. Phillips, Dirk P. Yamamoto, LeeAnn Racz, Total Exposure Health, 2020
Sun et al. (2015) and Dirks et al. (2016) have reviewed the status of genome-wide epigenetic profiling technologies. To probe the methylation status genome wide, methylated DNA is treated with sodium bisulfite which converts methylated cytosine to uracil (read as thymine when sequenced or probed by a methylation microarray such as the Illumina Methylation Epic BeadChip assay). For known human genes, the Illumina Methylation Epic BeadChip assay reports methylation status at ~853,307 CpG sites with coverage of >90% of ~26,000 CpG islands (regions of >200 bp with %GC >50%), North and South Shores of islands (2,000 bp regions upstream and downstream of CpG islands) and 80% coverage of North and South Shelves (regions between 2,000–4,000 bp upstream and downstream of CpG islands). A limitation of array-based technology is that it is difficult to incorporate single nucleotide polymorphism-type data that might be uncovered by bisulfite sequencing approaches. Whole-genome bisulfite sequencing offers the ability to probe all 28 million known CpG and correlate genotype and methylation patterns. Reduced representation bisulfite sequencing and variants offer coverage of 1.5–4 million unique CpG by using methylation-sensitive restriction digestion to enrich CpG-rich regions and sequence only these. The impact of histone modifications is frequently assayed by immunoprecipitation of chromatin using affinity tags directed against specific histone modifications followed by sequencing.
Advancements of next generation sequencing in the field of Rheumatoid Arthritis
Published in Egyptian Journal of Basic and Applied Sciences, 2023
Ankita Pati, Dattatreya Kar, Jyoti Ranjan Parida, Ananya Kuanar
Next-gen sequencing is demonstrated to aim epigenomics research by enabling the capture of the genome-wide DNA methylation distribution [40]. In this context, the best discussed NGS protocol for the identification of the methylated cytokines across the genome is WGBS or ‘Whole-genome bisulfite sequencing’ [41].