Determining promoter location based on DNA structure first-principles calculations

Genome Biol. 2007;8(12):R263. doi: 10.1186/gb-2007-8-12-r263.


A new method for the prediction of promoter regions based on atomic molecular dynamics simulations of small oligonucleotides has been developed. The method works independently of gene structure conservation and orthology and of the presence of detectable sequence features. Results obtained with our method confirm the existence of a hidden physical code that modulates genome expression.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • DNA / chemistry
  • DNA / genetics*
  • Gene Expression
  • Humans
  • Oligonucleotides / chemistry
  • Oligonucleotides / genetics*
  • Promoter Regions, Genetic*
  • Software*


  • Oligonucleotides
  • DNA