Investigating Hydroxymethylcytosine Modifications with Oxidative BS-Seq

Analyzing cytosine modifications, particularly hydroxymethylcytosine (5hmC), using oxidative Bisulfite-Seq (oxBS) provides insight into epigenetic regulation. Research by Felix Krueger and others explores the detection of 5-hydroxymethylcytosine and 5-formylcytosine at single-base resolution. Strategies like identifying target regions and comparing genome-wide differences between 5hmC and 5mC levels offer valuable tools for understanding epigenetic changes.

• Cytosine modifications
• Hydroxymethylcytosine
• Oxidative Bisulfite-Seq
• Epigenetic regulation
• DNA sequencing

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1. Additional Cytosine Modifications analysing hydroxymethylcytosine (5hmC) with oxidative BS-Seq (oxBS) Felix Krueger felix.krueger@babraham.ac.uk January 2015 1

2. Cytosine modifications Miguel R. Branco, Gabriella Ficz & Wolf Reik Nature Reviews Genetics 13,7-13(January 2012) 2

3. Detecting 5-hydroxymethylcytosine using Oxidative Bisulfite-Seq (oxBS) Quantitative sequencing of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution Science, 2012 May 18;336(6083):934-7 3

4. Detecting 5-formylcytosine using Reduced Bisulfite-Seq (redBS) M.J. BOOTH, NATURE CHEMISTRY Quantitative sequencing of 5-formylcytosine in DNA at single-base resolution 4

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6. oxBS: identifying target regions Gives an idea about false positive rate Analysis options to gain more power: - larger running windows - looking for sets/functional sets 6

7. hmC as difference BS oxBS genome-wide difference: sometimes negative values relative differences 7