Computer Codes for the Islets Publication

The computer programs below are for Islets, vol. 1, pp. 87-94, 2009. They are for the analysis of oscillations in the TCA cycle. The oscillations may be produced intrinsically through delayed negative feedback onto dehydrogenases, or extrinsically through oscillations in oxidative phosphorylation or glycolysis. The programs run with the XPPAUT computer software or, in one case, FORTRAN. XPPAUT is free, and runs on Unix, Linux, and Windows machines. It can be downloaded from the website of Bard Ermentrout .

• Model for intrinsic TCA oscillations.
  This program has oscillations in the TCA cycle generated by delayed negative feedback onto one of several dehydrogenases. It was used to make Figures 3 and 4. intrinsic.ode


• Model for imposed sinusoidal NADH oscillations.
  This has imposed NADH oscillations which act on dehydrogenases in the TCA cycle to produce oscillations in TCA intermediates. It was used to make Figure 5. imposed_NADH.ode


• Model for oxidative phosphorylation oscillations.
  This has oscillations in oxidative phosphorylation, which include NADH oscillations that act on dehydrogenases in the TCA cycle to produce oscillations in TCA intermediates. It was used to make Figure 6. OP_osc.f


• Model for imposed sinusoidal AcCoA oscillations.
  This has oscillations in AcCoA (which would come from glycolytic oscillations). These enter into the TCA cycle to produce oscillations in TCA intermediates. It was used to make Figure 7. imposed_AcCoA.ode