{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "# Problem 1.2: Separation of time scales\n", "\n", "
" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "*This problem is still a draft.*\n", "\n", "We employed a separation-of-time-scales assumption to simplify our expressions for the rate of production of a gene product. Specifically, we assumed that the binding and unbinding dynamics of a repressor to its target DNA sequence happened at a faster time scale than transcription and translation dynamics.\n", "\n", "**a)** What happens if you don't assume separation of timescales? Write a set of differential equations to capture the dynamics of mRNA concentration $m$ and protein concentration $x$, as well as the dynamics of the unoccupied promoter concentration $p$ as a function of the repressor concentration $r$ and total promoter concentration $p_\\mathrm{tot}$.\n", "\n", "**b)** How do you tell if you're in a parameter regime where that assumption is appropriate? Give both theoretical and experimental arguments." ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "
" ] } ], "metadata": { "anaconda-cloud": {}, "kernelspec": { "display_name": "Python 3 (ipykernel)", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.9.7" } }, "nbformat": 4, "nbformat_minor": 4 }