Journal of Computer Science & Systems Biology

Department of Computer Science, University of Massachusetts, Lowell, University Ave, Lowell, MA 01854, USA

Publications

• Research Article   
  Binary Transition Pattern (BTP) for Erythropoietic DNA Methylation Data
  Author(s): Najyah Garoot* and Byung Guk Kim
  
  Objective: Despite whole-genome data analysis for understanding the implications of differential DNA methylation patterns and the nature of their correlation with gene expression (GE) regulation, the observations remain controversial. Methods: Unlike the usual methods of selecting differentially methylated regions (DMR) by hypothesis statistical testing, we clustered CpG sites by their actual log2FC over time. Each cluster is represented by a 5-digit binary code. Results: We identified novel stage-specific TFBS during erythropoiesis. Our stage-specific differential methylation clusters have the ability to determine TFBS of co-regulators such as GATA1 and PU.1 at hypermethylated CpG loci. Conclusion: Hypomethylated CpG loci clusters that are associated with GE upregulation are in.. Read More»
  

  Abstract PDF