TY  - JOUR
A1  - Sun, Zhiyi
A1  - Vaisvila, Romualdas
A1  - Hussong, Laura-Madison
A1  - Yan, Bo
A1  - Baum, Chloé
A1  - Saleh, Lana
A1  - Samaranayake, Mala
A1  - Guan, Shengxi
A1  - Dai, Nan
A1  - Corrêa, Ivan R.
A1  - Pradhan, Sriharsa
A1  - Davis, Theodore B.
A1  - Evans, Thomas C.
A1  - Ettwiller, Laurence M.
T1  - Nondestructive enzymatic deamination enables single-molecule long-read amplicon sequencing for the determination of 5-methylcytosine and 5-hydroxymethylcytosine at single-base resolution
Y1  - 2021/02/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 291 
EP  - 300 
DO  - 10.1101/gr.265306.120 
VL  - 31 
IS  - 2 
UR  - http://genome.cshlp.org/content/31/2/291.abstract 
N2  - The predominant methodology for DNA methylation analysis relies on the chemical deamination by sodium bisulfite of unmodified cytosine to uracil to permit the differential readout of methylated cytosines. Bisulfite treatment damages the DNA, leading to fragmentation and loss of long-range methylation information. To overcome this limitation of bisulfite-treated DNA, we applied a new enzymatic deamination approach, termed enzymatic methyl-seq (EM-seq), to long-range sequencing technologies. Our methodology, named long-read enzymatic modification sequencing (LR-EM-seq), preserves the integrity of DNA, allowing long-range methylation profiling of 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) over multikilobase length of genomic DNA. When applied to known differentially methylated regions (DMRs), LR-EM-seq achieves phasing of >5 kb, resulting in broader and better defined DMRs compared with that previously reported. This result showed the importance of phasing methylation for biologically relevant questions and the applicability of LR-EM-seq for long-range epigenetic analysis at single-molecule and single-nucleotide resolution. 
ER  -