Pulse-Chase Labeling Kinetics Simulator With Compartmentation

This page uses JavaScript to simulate the pulse-chase labeling kinetics of the total pools of intermediates B, C and D in the compartmentalized metabolic scheme shown above, where the pools exist as metabolically active (met) and metabolically inactive, storage (stor) pools. The JavaScript language is supported by Netscape Navigator and Microsoft Internet Explorer 3.0 or above. If you are using a JavaScript-compatible browser, try varying the pool sizes and fluxes to determine how this influences the labeling patterns. Note than when the rate of synthesis exceeds the rate of utilization, the pool will expand with time. When the rate of utilization exceeds the rate of synthesis, the pool will deplete with time. If a pool becomes zero during the time-course, the simulation will terminate before completion!

Starting values [values should not exceed 6 characters in length]:

Enter A1: (Precursor isotope abundance during the pulse (atom %))
Enter A2: (Precursor isotope abundance during the chase (atom %))
Enter B1: (Starting isotope abundance of metabolic pool of B (atom %))
Enter B2: (Starting pool size of metabolic pool of B (nmol.gfw-1))
Enter B3: (Rate of synthesis of metabolic pool of B (nmol.min-1.gfw-1))
Enter B4: (Combined rate of utilization of metabolic pool of B (nmol.min-1.gfw-1))
Enter B5: (Starting isotope abundance of storage pool of B (atom %))
Enter B6: (Starting pool size of storage pool of B (nmol.gfw-1))
Enter B7: (Rate of transport of B from metabolic to storage pool (nmol.min-1.gfw-1))
Enter B8: (Rate of transport of B from storage to metabolic pool (nmol.min-1.gfw-1))
Enter C1: (Starting isotope abundance of metabolic pool of C (atom %))
Enter C2: (Starting pool size of metabolic pool of C (nmol.gfw-1))
Enter C3: (Rate of synthesis of metabolic pool of C (nmol.min-1.gfw-1))
Enter C4: (Combined rate of utilization of metabolic pool of C (nmol.min-1.gfw-1))
Enter C5: (Starting isotope abundance of storage pool of C (atom %))
Enter C6: (Starting pool size of storage pool of C (nmol.gfw-1))
Enter C7: (Rate of transport of C from metabolic to storage pool (nmol.min-1.gfw-1))
Enter C8: (Rate of transport of C from storage to metabolic pool (nmol.min-1.gfw-1))
Enter D1: (Starting isotope abundance of metabolic pool of D (atom %))
Enter D2: (Starting pool size of metabolic pool of D (nmol.gfw-1))
Enter D3: (Rate of synthesis of metabolic pool of D (nmol.min-1.gfw-1))
Enter D4: (Combined rate of utilization of metabolic pool of D (nmol.min-1.gfw-1))
Enter D5: (Starting isotope abundance of storage pool of D (atom %))
Enter D6: (Starting pool size of storage pool of D (nmol.gfw-1))
Enter D7: (Rate of transport of D from metabolic to storage pool (nmol.min-1.gfw-1))
Enter D8: (Rate of transport of D from storage to metabolic pool (nmol.min-1.gfw-1))
Enter time scale of the labeling simulation: (Time (min))
Enter time at which chase begins: (Time (min))

To disable the chase function, enter a "time at which chase begins" which is greater than the "time scale of the labeling simulation". After entering starting values (inputs), click the Calculate button. Simulated values will then be displayed in the text boxes below. The Calculate button can be reused repetitively after modifying input values.

Computed time-courses of isotope abundance (atom %) and pool size (nmol.gfw-1):












Note that the pool sizes shown in the text boxes above represent the sum of the "metabolic" and "storage" pools of B, C and D (i.e. B2 + B6, C2 + C6, and D2 + D6, respectively). The isotope abundances represent the average isotope abundances of the "metabolic" and "storage" pools of B, C and D (i.e. ((B1 * B2) + (B5 * B6))/(B2 + B6), ((C1 * C2) + (C5 * C6))/(C2 + C6) and ((D1 * D2) + (D5 * D6))/(D2 + D6), respectively). With certain browsers (e.g. Internet Explorer 3.0), the values displayed in the text boxes above are double-precision floating-point (e.g. 0.019995 may be displayed as 1.9995E-02). Thus, it may be necessary to use your mouse to highlight certain text boxes to view the full double-precision floating-point notations for values of less than 0.1. Errors resulting in script termination will occur when inputs are entered as text rather than as numerical values. Upon encountering such errors it may be necessary to "Refresh" the page.


Last update: 01/12/99
Author: David Rhodes