[PDF] Top 20 epiG: statistical inference and profiling of DNA methylation from whole genome bisulfite sequencing data
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epiG: statistical inference and profiling of DNA methylation from whole genome bisulfite sequencing data
... guide epiG in situations where the data might be interpreted in different ways because the bisulfite conver- sion process creates ambiguities; secondly, it weights the likelihood of introducing ... See full document
16
DNA Methylation Analysis of the COVID-19 Host Cell Receptor, Angiotensin I Converting Enzyme 2 Gene (ACE2) in the Respiratory System Reveal Age and Gender Differences
... 3. DNA methylation variability related to ACE2 gene in human lung tissues men and women from GEO accession: ...GSE52401. DNA methylation level is shown line at median with minimum and ... See full document
24
MethVisual visualization and exploratory statistical analysis of DNA methylation profiles from bisulfite sequencing
... based DNA methylation data can be pro- duced in a high throughput fashion and on the basis of single gene ...throughput DNA methylation profiling is a very new technological ... See full document
8
Musical patterns for comparative epigenomics
... illustrate methylation differences between cell types. For this, we used data from Illumina 450K arrays since no single cell methylation data is currently avail- able between healthy ... See full document
5
Profiling genome-wide DNA methylation
... insights, DNA methylation assays have great potential for applica- tion to different fields, particularly medicine and forensic sciences [119, ...[120–124]. DNA methylation has been applied to ... See full document
16
Comparison of whole genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data
... the methylation increase over the PBAT values was linear across all 5mC values, for which we did a genome-wide comparison of each method against ...CG methylation values, ...PBAT data for the ... See full document
19
Whole genome bisulfite sequencing of cell free DNA and its cellular contributors uncovers placenta hypomethylated domains
... These data are reinforced by a recent study which identified a similar pattern in a single pla- centa sample using low coverage WGBS ...CpG methylation in the pla- centa within regions containing the ... See full document
11
A Bayesian Approach for Analysis of Whole-Genome Bisulfite Sequencing Data Identifies Disease-Associated Changes in DNA Methylation
... WGBS data are incorporated into ABBA: for in- stance, the variability in DNA methylation between the (ex- perimental) replicates within each group is modeled through a random effect with a specific ... See full document
17
Whole-genome bisulfite sequencing of cell-free DNA identifies signature associated with metastatic breast cancer
... used bisulfite amplicon sequencing on Illumina’s MiSeq platform for technical validation of WGBS on an independent extraction of plasma from each ...of DNA methylation in low-input ... See full document
10
Genome-wide epigenomic profiling for biomarker discovery
... DNA methylation. DNA methylation is the process in which a methyl group is added to the 5 ′ position of cytosines in the DNA, which mainly occurs within the context of ...CpGs. ... See full document
17
Epigenetic Modifications in Generalized Autoimmune Epithelitis: Sjögren’s Syndrome and Primary Biliary Cholangitis
... crucial. Whole blood, although an easily accessible tissue, is composed of many different cell types, and results may be affected by the underlying heterogeneity in cell type composition between patients and ... See full document
18
A systematic evaluation of whole genome amplification of bisulfite-modified DNA
... by DNA polymerase, MDA is believed to produce more unbiased amplified products ...when bisulfite- modified DNA was used as template ...amplification from severely degraded DNA tem- ... See full document
8
Novel parent-of-origin-specific differentially methylated loci on chromosome 16
... in methylation, which we defined as an absolute difference in percent methylation of at least 40 between upd(16)mat and upd(16)pat with intermediate methyla- tion in control ...biased methylation ... See full document
10
Reduced nuclear DNA methylation and mitochondrial transcript changes in adenomas do not associate with mtDNA methylation
... WGBS data showed that mtDNA has a much lower level of CpG methylation than the nuclear genome [44, ...non-CG methylation in mtDNA, but at a similarly low level as the nuclear ...the ... See full document
8
Endurance training remodels sperm-borne small RNA expression and methylation at neurological gene hotspots
... hg19 genome and for computing the CpG ...calculated methylation levels and found ...mum methylation change of 5% and 10% were ...median methylation of less than 20% as the foreground and ... See full document
11
DNA methylation and cognitive aging
... by DNA methylation and posttranslational modifications of nucleosomal ...of DNA, and influence the gene expression and potentially cellular/ organismal phenotypes ... See full document
11
The potential of circulating tumor DNA methylation analysis for the early detection and management of ovarian cancer
... for methylation quantification that takes advantage of the sequencing- specific information ...individual methylation sta- tus of all sequenced CpGs on every single DNA mol- ecule) to overcome ... See full document
14
Functional methylome analysis of human diabetic kidney disease
... WGBS data analysis. PCA plot was generated from methylation percentages of individual CpGs using RnBeads R package version ...mean methylation dif- ference 15% and greater, and area Stat 100 ... See full document
16
ZBTB33 binds unmethylated regions of the genome associated with actively expressed genes
... increased DNA methylation and compact chromatin structure may prevent Kaiso from binding in a particular cell ...distinct from direct binding to its ...ChIP-seq data from the ... See full document
18
Whole genome bisulfite sequencing of multiple individuals reveals complementary roles of promoter and gene body methylation in transcriptional regulation
... of DNA methylation in the three ...the whole genome, Figure 1 for chromo- some 1 as an ...The methylation density measure mCG/CG has been commonly used in various methy- lome studies to ... See full document
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