论文标题
求解基于TASEP的mRNA翻译模型的功率系列方法
Power series method for solving TASEP-based models of mRNA translation
论文作者
论文摘要
我们开发了一种基于完全不对称的简单排除过程（TASEP）来解决Messenger RNA（mRNA）翻译的数学模型的方法。我们的主要目标是证明该方法具有多功能性，适用于逼真的翻译模型。为此，我们考虑了与密码子依赖性伸长率的TASEP，由于mRNA的圆形循环化而导致的核糖体下降和翻译重新定量引起的过早终止。我们将方法应用于模型生物体{\ it saccharomyces cerevisiae}在生理条件下，并与随机模拟的结果找到了出色的协议。我们的发现表明，对翻译的共同观点是被启动限制的速度限制的观点。取而代之的是，我们发现核糖体干扰的理论证据以及对坡道假说的理论支持，该假设认为基因开头的密码子的伸长率较慢，以降低核糖体密度和干扰。
We develop a method for solving mathematical models of messenger RNA (mRNA) translation based on the totally asymmetric simple exclusion process (TASEP). Our main goal is to demonstrate that the method is versatile and applicable to realistic models of translation. To this end we consider the TASEP with codon-dependent elongation rates, premature termination due to ribosome drop-off and translation reinitiation due to circularisation of the mRNA. We apply the method to the model organism {\it Saccharomyces cerevisiae} under physiological conditions and find excellent agreements with the results of stochastic simulations. Our findings suggest that the common view on translation as being rate-limited by initiation is oversimplistic. Instead we find theoretical evidence for ribosome interference and also theoretical support for the ramp hypothesis which argues that codons at the beginning of genes have slower elongation rates in order to reduce ribosome density and jamming.
