I have a question regarding the noise between biological replicates in bisulfite sequencing experiments. From the papers that I have read, they usually make mention of the number of biological replicates in use (2 in case of the recently published tomato methylome), but they don't, as far as I can tell, mention if there is a great deal of variability in cytosine methylation for a given base. Any information or direction to a paper would be very helpful to me.
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It seems to vary greatly by base and experiment. Check out some of the supplemental figures in this paper, which I recall show some nice methylation level vs. variance graphs.
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The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
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