Genome-Wide Analysis of DNA Methylation in Low Cell Numbers by Reduced Representation Bisulfite Sequencing

2012 ◽  
pp. 187-197 ◽  
Author(s):  
Sébastien A. Smallwood ◽  
Gavin Kelsey
Keyword(s):  
Dna Methylation ◽  
Bisulfite Sequencing ◽  
Reduced Representation ◽  
Cell Numbers ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Reduced Representation Bisulfite Sequencing

scholarly journals Genome-wide analysis of DNA methylation in pigs using reduced representation bisulfite sequencing

DNA Research ◽  
2015 ◽  
Vol 22 (5) ◽  
pp. 343-355 ◽  
Author(s):  
Minkyeung Choi ◽  
Jongin Lee ◽  
Min Thong Le ◽  
Dinh Truong Nguyen ◽  
Suhyun Park ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Bisulfite Sequencing ◽  
Reduced Representation ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Reduced Representation Bisulfite Sequencing

scholarly journals Genome-Wide DNA Methylation and Hydroxymethylation Changes Revealed Epigenetic Regulation of Neuromodulation and Myelination in Yak Hypothalamus

2021 ◽  
Vol 12 ◽  
Author(s):  
Zhixin Chai ◽  
Zhijuan Wu ◽  
Qiumei Ji ◽  
Jikun Wang ◽  
Jiabo Wang ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Epigenetic Regulation ◽  
Bisulfite Sequencing ◽  
Brain Regions ◽  
Cattle Genome ◽  
Biological Functions ◽  
Reduced Representation ◽  
Genome Wide ◽  
Reduced Representation Bisulfite Sequencing ◽  
The Brain

Both 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) are important epigenetic modifications in neurodevelopment. However, there is little research examining the genome-wide patterns of 5mC and 5hmC in brain regions of animals under natural high-altitude conditions. We used oxidative reduced representation bisulfite sequencing (oxRRBS) to determine the 5mC and 5hmC sites in the brain, brainstem, cerebellum, and hypothalamus of yak and cattle. We reported the first map of genome-wide DNA methylation and hydroxymethylation in the brain, brainstem, cerebellum, and hypothalamus of yak (living at high altitudes) and cattle. Overall, we found striking differences in 5mC and 5hmC between the hypothalamus and other brain regions in both yak and cattle. Genome-wide profiling revealed that 5mC level decreased and 5hmC level increased in the hypothalamus than in other regions. Furthermore, we identified differentially methylated regions (DMRs) and differentially hydroxymethylated regions (DhMRs), most of which overlapped with each other. Interestingly, transcriptome results for these brain regions also showed distinctive gene levels in the hypothalamus. Finally, differentially expressed genes (DEGs) regulated by DMRs and DhMRs may play important roles in neuromodulation and myelination. Overall, our results suggested that mediation of 5mC and 5hmC on epigenetic regulation may broadly impact the development of hypothalamus and its biological functions.

Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling

2011 ◽  
Vol 6 (4) ◽  
pp. 468-481 ◽  
Author(s):  
Hongcang Gu ◽  
Zachary D Smith ◽  
Christoph Bock ◽  
Patrick Boyle ◽  
Andreas Gnirke ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Bisulfite Sequencing ◽  
Reduced Representation ◽  
Reduced Representation Bisulfite Sequencing ◽  
Dna Methylation Profiling ◽  
Genome Scale ◽  
Methylation Profiling

Rapid and affordable genome-wide bisulfite DNA sequencing by XmaI-reduced representation bisulfite sequencing

Epigenomics ◽  
2017 ◽  
Vol 9 (6) ◽  
pp. 833-847 ◽  
Author(s):  
Alexander S Tanas ◽  
Marina E Borisova ◽  
Ekaterina B Kuznetsova ◽  
Viktoria V Rudenko ◽  
Kristina O Karandasheva ◽  
...  
Keyword(s):  
Dna Sequencing ◽  
Bisulfite Sequencing ◽  
Reduced Representation ◽  
Genome Wide ◽  
Reduced Representation Bisulfite Sequencing

scholarly journals Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans

2017 ◽  
Vol 2 (1) ◽  
Author(s):  
Juan J. Carmona ◽  
William P. Accomando ◽  
Alexandra M. Binder ◽  
John N. Hutchinson ◽  
Lorena Pantano ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Bisulfite Sequencing ◽  
Empirical Comparison ◽  
Reduced Representation ◽  
Reduced Representation Bisulfite Sequencing
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