ArticleBioinformatics (Oxford, England)2009
A pipeline for the quantitative analysis of CG dinucleotide methylation using mass spectrometry.
Article in Bioinformatics (Oxford, England), 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
43 citing papers in PubMed.
- Epigenetic therapy overcomes treatment resistance in T cell prolymphocytic leukemia.Science translational medicine · 2015Trial
- Hypermethylation at loci sensitive to the prenatal environment is associated with increased incidence of myocardial infarction.International journal of epidemiology · 2012Trial
- The last imprint: Differential methylation assay for forensic identification of brain tissue and death determination.Journal of biological methods · 2025Article
- Combined epigenetic and immunotherapy for blastic and classical mantle cell lymphoma.Oncotarget · 2022Article
- AmpliconDesign - an interactive web server for the design of high-throughput targeted DNA methylation assays.Epigenetics · 2021Article
- Human SARS-CoV-2 has evolved to reduce CG dinucleotide in its open reading frames.Scientific reports · 2020Article
- Regulatory T cells from patients with end-stage organ disease can be isolated, expanded and cryopreserved according good manufacturing practice improving their function.Journal of translational medicine · 2019Article
- In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice.Endocrinology · 2017Article
- A pre-neoplastic epigenetic field defect in HCV-infected liver at transcription factor binding sites and polycomb targets.Oncogene · 2017Article
- Small-Magnitude Effect Sizes in Epigenetic End Points are Important in Children's Environmental Health Studies: The Children's Environmental Health and Disease Prevention Research Center's Epigenetics Working Group.Environmental health perspectives · 2017Article
- Epigenetic Variability across Human Populations: A Focus on DNA Methylation Profiles of the KRTCAP3, MAD1L1 and BRSK2 Genes.Genome biology and evolution · 2016Article
- DNA hypermethylation of CD3(+) T cells from cord blood of infants exposed to intrauterine growth restriction.Diabetologia · 2016Article
- Amnion as a surrogate tissue reporter of the effects of maternal preeclampsia on the fetus.Clinical epigenetics · 2016Article
- Dnmts and Tet target memory-associated genes after appetitive olfactory training in honey bees.Scientific reports · 2015Article
- Harnessing Noxa demethylation to overcome Bortezomib resistance in mantle cell lymphoma.Oncotarget · 2015Article
- Risk of childhood asthma is associated with CpG-site polymorphisms, regional DNA methylation and mRNA levels at the GSDMB/ORMDL3 locus.Human molecular genetics · 2015Article
- Predictive properties of DNA methylation patterns in primary tumor samples for osteosarcoma relapse status.Epigenetics · 2015Article
- HLA-DRB1 and HLA-DQB1 methylation changes promote the occurrence and progression of Kazakh ESCC.Epigenetics · 2014Article
- An integrated epigenetic and transcriptomic analysis reveals distinct tissue-specific patterns of DNA methylation associated with atopic dermatitis.The Journal of investigative dermatology · 2014Article
- DNA methylation is developmentally regulated for genes essential for cardiogenesis.Journal of the American Heart Association · 2014Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
motivationDNA cytosine methylation is an important epigenetic regulator, critical for mammalian development and the control of gene expression. Numerous techniques using either restriction enzyme or affinity-based approaches have been developed to interrogate cytosine methylation status genome-wide, however these assays must be validated by a more quantitative approach, such as MALDI-TOF mass spectrometry of bisulphite-converted DNA (commercialized as Sequenom's EpiTYPER assay using the MassArray system). Here, we present an R package ('MassArray') that assists in assay design and uses the standard Sequenom output file as the input to a pipeline of analyses not available as part of the commercial software. The tools in this package include bisulphite conversion efficiency calculation, sequence polymorphism flagging and visualization tools that combine multiple experimental replicates and create tracks for genome browser viewing.
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What OpenQuestion holds
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.