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DNA methylation has been identified to be widely associated to complex diseases. Among biological platforms to profile DNA methylation in human, the Illumina Infinium HumanMethylation450 BeadChip (450K) has been accepted as one of the most efficient technologies. However, challenges exist in analysis of DNA methylation data generated by this technology due to widespread biases. Here we proposed a...
A number of empirical Bayes models were developed to investigate the differential methylation analysis. However, it is not clear which empirical Bayes model performs best in differential methylation analysis. In this paper, five empirical Bayes models were constructed and applied to the differential methylation analysis of A2780 cells between before and after 1, 3, and 5 round of cisplatin treatment...
The interaction between nanomaterials and genomes is getting more and more attention. Such studies are getting involved into several fields: environment safety, food safety, nanobiotechnology and drug development. Direct interaction between nanoparticles and DNA in vitro has been reported in several studies, but data for in vivo binding between genomic DNA and nanoparticles are rare. In this study,...
We describe a high throughput method of printing DNA submicron patterns on solid substrates. Combining nanoimprint lithography and contact printing, uniform DNA patterns can be produced with feature sizes from 2 μm down to 250 nm. In this method, poly(methylmethacrylate) (PMMA) with submicron line or dot patterns (produced by nanoimprint lithography) is first chemically functionalized with poly(ethyleneimine)...
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