fC-Seal
A 5-Formylcytosine-Selective Chemical Labeling
In demethylation pathways, the TET family of proteins oxidize 5mC to 5hmC, 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC) in a stepwise fashion. Conversely, in vivo, 5fmC residues can be converted to cytosine by base-excision repair.In fC-Seal, 5hmC residues in the genome are blocked with regular glucose using _GT, and 5fC residues are reduced to 5hmC by NaBH4. The newly generated 5hmC residues are modified, enriched, and sequenced (Song et al., 2013)
Advantages:
- Does not require antibodies
Disadvantages:
- Cannot map 5fC and 5caC at single-nucleotide resolution and determine their relative abundance (Neri et al., 2016)
Reagents:
Illumina Library prep and Array Kit Selector
Reviews:
Neri F., Incarnato D., Krepelova A., Parlato C. and Oliviero S. Methylation-assisted bisulfite sequencing to simultaneously map 5fC and 5caC on a genome-wide scale for DNA demethylation analysis. Nat Protoc. 2016;11:1191-1205
Plongthongkum N., Diep D. H. and Zhang K. Advances in the profiling of DNA modifications: cytosine methylation and beyond. Nat Rev Genet. 2014;15:647-661
References:
Song C. X., Szulwach K. E., Dai Q., et al. Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming. Cell. 2013;153:678-691
Related
History: fC-Seal
Revision by sbrumpton on 2017-06-21 07:50:20 - Show/Hide
A 5-Formylcytosine-Selective Chemical Labeling
In demethylation pathways, the TET family of proteins oxidize 5mC to 5hmC, 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC) in a stepwise fashion. Conversely, in vivo, 5fmC residues can be converted to cytosine by base-excision repair.In fC-Seal, 5hmC residues in the genome are blocked with regular glucose using _GT, and 5fC residues are reduced to 5hmC by NaBH4. The newly generated 5hmC residues are modified, enriched, and sequenced (Song et al., 2013)
Advantages:- Does not require antibodies
Disadvantages:- Cannot map 5fC and 5caC at single-nucleotide resolution and determine their relative abundance (Neri et al., 2016)
Reagents:Illumina Library prep and Array Kit SelectorReviews:Neri F., Incarnato D., Krepelova A., Parlato C. and Oliviero S. Methylation-assisted bisulfite sequencing to simultaneously map 5fC and 5caC on a genome-wide scale for DNA demethylation analysis. Nat Protoc. 2016;11:1191-1205Plongthongkum N., Diep D. H. and Zhang K. Advances in the profiling of DNA modifications: cytosine methylation and beyond. Nat Rev Genet. 2014;15:647-661References:Song C. X., Szulwach K. E., Dai Q., et al. Genome-wide profiling of 5-formylcytosine reveals its roles in epigenetic priming. Cell. 2013;153:678-691