ArticlePloS one2011
High resolution detection and analysis of CpG dinucleotides methylation using MBD-Seq technology.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
What it found
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Who cites it
45 citing papers in PubMed, 78 citations in OpenAlex.
- 5mC and 5hmC methylation sequencing: the power of 6-base sequencing in a multiomic era.Epigenomics · 2026Review
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- The Transition from Cancer "omics" to "epi-omics" through Next- and Third-Generation Sequencing.Life (Basel, Switzerland) · 2022Review
- Current and Emerging Technologies for the Analysis of the Genome-Wide and Locus-Specific DNA Methylation Patterns.Advances in experimental medicine and biology · 2022Article
- DNA methylation methods: Global DNA methylation and methylomic analyses.Methods (San Diego, Calif.) · 2021Review
- Article
- A model of pulldown alignments from SssI-treated DNA improves DNA methylation prediction.BMC bioinformatics · 2019Article
- Review
- Genome‑wide DNA methylation profiling in a rat model with vascular dementia.Molecular medicine reports · 2018Article
- Successful application of human-based methyl capture sequencing for methylome analysis in non-human primate models.BMC genomics · 2018Article
- Article
- Genome-wide analysis of DNA methylation in hypothalamus and ovary of Capra hircus.BMC genomics · 2017Article
- Statistical challenges in analyzing methylation and long-range chromosomal interaction data.Statistics in biosciences · 2016Article
- Methylation analyses in liquid biopsy.Translational lung cancer research · 2016Review
- A Whole Methylome CpG-SNP Association Study of Psychosis in Blood and Brain Tissue.Schizophrenia bulletin · 2016Article
- Genome-wide DNA methylation analysis of transient neonatal diabetes type 1 patients with mutations in ZFP57.BMC medical genetics · 2016Article
- DNA methylation profiling of primary neuroblastoma tumors using methyl-CpG-binding domain sequencing.Scientific data · 2016Article
- Merging data from genetic and epigenetic approaches to better understand autistic spectrum disorder.Epigenomics · 2016Article
- High density methylation QTL analysis in human blood via next-generation sequencing of the methylated genomic DNA fraction.Genome biology · 2015Article
- Context-Specific Effects of TGF-β/SMAD3 in Cancer Are Modulated by the Epigenome.Cell reports · 2015Article
Corrections and comments
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Authors and funding
12 authors at 2 institutions in 2 countries.
Funding
Abstract
Methyl-CpG binding domain protein sequencing (MBD-seq) is widely used to survey DNA methylation patterns. However, the optimal experimental parameters for MBD-seq remain unclear and the data analysis remains challenging. In this study, we generated high depth MBD-seq data in MCF-7 cell and developed a bi-asymmetric-Laplace model (BALM) to perform data analysis. We found that optimal efficiency of MBD-seq experiments was achieved by sequencing ∼100 million unique mapped tags from a combination of 500 mM and 1000 mM salt concentration elution in MCF-7 cells. Clonal bisulfite sequencing results showed that the methylation status of each CpG dinucleotides in the tested regions was accurately detected with high resolution using the proposed model. These results demonstrated the combination of MBD-seq and BALM could serve as a useful tool to investigate DNA methylome due to its low cost, high specificity, efficiency and resolution.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.