Whole Genome Bisulfite Sequencing (WGBS) is a bisulfite sequencing method to detect in-depth DNA methylation across the entire genome, including methylation at CpG sites and less common non-CpG site such as CNG. WGBS is the gold standard for bisulfite based DNA methylation s...
Target bisulfite sequencingdesigns primers for target fragments, performs PCR amplification after BS conversion, and finally constructs libraries for next-generation sequencing. The sequencing depth of target region sequencing can reach from hundreds to tens of thousands, enabling precise detection of methyl...
Coverage recommendations for methylation analysis by whole-genome bisulfite sequencing. Nat. Methods 12(3), 230-232, 231 p following 232 (2015).Ziller MJ, Hansen KD, Meissner A, Aryee MJ (2014) Coverage recommendations for methylation analysis by whole-genome bisulfite sequencing. Nat Methods...
the lack of sufficient sequencing depth hampered the precise analysis. Therefore, increased sequencing depth for the long read analysis is needed for a more comprehensive detection of minor
and the sequencing depth should be about half of the average value of autosomes in the female genome reads. Using this method, we identified 306 W-linked scaffolds in the non-PAR region representing a 16.4 Mb length with a scaffold N50 of 128 kb. Considering the interference of W reads and...
We performed whole-genome sequencing (WGS) of plasma DNA and identified two discrete regions at transcription start sites (TSS) where the nucleosome occupancy results in different read-depth coverage patterns in expressed and silent genes. By employing machine learning for gene classification, we ...
whole-genomebisulfitesequencing EmanueleLibertini 1 ,SimonC.Heath 2 ,RifatA.Hamoudi 3 ,MartaGut 2 ,MichaelJ.Ziller 4,5,6 ,AgataCzyz 7 , VictorRuotti 7 ,HendrikG.Stunnenberg 8 ,MattiaFrontini 9,10,11 ,WillemH.Ouwehand 9,10,12
The results of the bisulfite-sequencing experiments for the genes \\{PDCD5\\} and \\{TIMP2\\} confirmed the methylation status identified by MeDIP-Seq, and the mRNA expression levels of these two genes were consistent with their \\{DNA\\} methylation profiles. To our knowledge, the ...
DNA methylation, XGBoost, Whole-genome bisulfite sequencing (WGBS), EPIC, Imputation, Adipose, Skeletal muscle, Pancreatic isletsBackground Bisulfite sequencing is widely employed to study the role of DNA methylation in disease; however, the data suffer from biases due to coverage depth variability. ...
[Method] Whole genome bisulfite sequencing (WGBS) technology was used to analyze the methylation level, differentially methylated region (DMR) and DMG of whole genome DNA of longissimus dorsi muscle tissue in 1-day-old male Lantang and Landrace pigs, and the...