{
  "id": "cond-mat/0310656",
  "version": "v1",
  "published": "2003-10-28T14:59:05.000Z",
  "updated": "2003-10-28T14:59:05.000Z",
  "title": "Sensitivity of Phage Lambda upon Variations of the Gibbs Free Energy",
  "authors": [
    "Audun Bakk",
    "Ralf Metzler",
    "Kim Sneppen"
  ],
  "comment": "13 pages, 4 figures, LaTeX",
  "categories": [
    "cond-mat.stat-mech",
    "q-bio.MN"
  ],
  "abstract": "We investigate the sensitivity of production rates (activities) of the regulatory proteins CI (repressor) and Cro at the right operator (O_R}) of bacteriophage lambda. The DNA binding energies of CI, Cro, and RNA polymerase are perturbed to check the uncertainty of the activity, due to the experimental error, by means of a computational scattering method according to which the binding energies are simultaneously chosen at random around the literature values, with a width corresponding to the experimental error. In a grand canonical ensemble, with the randomly drawn protein-DNA binding energies as input, we calculate the corresponding activities of the promoters P_RM and P_R. By repeating this procedure we obtain a mean value of the activity that roughly corresponds to wild-type (unperturbed) activity. The standard deviation emerging from this scheme, a measure of the sensitivity due to experimental error, is significant (typically > 20% relative to wild-type activity), but still the promoter activities are sufficiently separated to make the switch feasible. We also suggest a new compact way of presenting repressor and Cro data.",
  "revisions": [
    {
      "version": "v1",
      "updated": "2003-10-28T14:59:05.000Z"
    }
  ],
  "analyses": {
    "keywords": [
      "gibbs free energy",
      "phage lambda",
      "experimental error",
      "sensitivity",
      "variations"
    ],
    "note": {
      "typesetting": "LaTeX",
      "pages": 13,
      "language": "en",
      "license": "arXiv",
      "status": "editable",
      "adsabs": "2003cond.mat.10656B"
    }
  }
}