Spreadsheet-based program for the analysis of DNA methylation

R. Anbazhagan, J. G. Herman, K. Enika, E. Gabrielson

Research output: Contribution to journalArticlepeer-review

Abstract

Methylation of DNA in CpG dense regions of gene promoters (CpG islands) is important for transcriptional inactivation of selective genes in normal and neoplastic cells. Here, we presents a spreadsheet-based program adapted from Microsoft® Excel® that is useful for identifying CpG islands and for assisting in the laboratory analysis of DNA methylation of these regions. Upon execution of the program, a customized workbook analyzes an entered DNA sequence for the total number and percentage cytosine and guanine nucleotides, the total number and percentage of CpG sites, and a CpG:GpC ratio. The program also displays the distribution of CpG sites in a visual format as well as in two different graphical formats. Finally, the program assists in laboratory studies of DNA methylation that employ bisulfite modification of DNA by displaying methylation-dependent effects of bisulfite treatment on DNA sequences.

Original languageEnglish (US)
Pages (from-to)110-114
Number of pages5
JournalBioTechniques
Volume30
Issue number1
DOIs
StatePublished - 2001

ASJC Scopus subject areas

  • Biotechnology
  • Biochemistry, Genetics and Molecular Biology(all)

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