Aral Neşe, Kabakçıoğlu Alkan
Department of Physics, Koç University, Rumelifeneri Yolu Sarıyer 34450, Istanbul, Turkey.
Phys Biol. 2015 May 13;12(3):036002. doi: 10.1088/1478-3975/12/3/036002.
We define a measure of coherent activity for gene regulatory networks, a property that reflects the unity of purpose between the regulatory agents with a common target. We propose that such harmonious regulatory action is desirable under a demand for energy efficiency and may be selected for under evolutionary pressures. We consider two recent models of the cell-cycle regulatory network of the yeast, Saccharomyces cerevisiae as a case study and calculate their degree of coherence. A comparison with random networks of similar size and composition reveals that the yeast's cell-cycle regulation is wired to yield an exceptionally high level of coherent regulatory activity. We also investigate the mean degree of coherence as a function of the network size, connectivity and the fraction of repressory/activatory interactions.
我们定义了一种基因调控网络的相干活动度量，该属性反映了具有共同目标的调控因子之间目标的一致性。我们提出，在能源效率需求下，这种协调的调控作用是可取的，并且可能在进化压力下被选择。我们将酿酒酵母细胞周期调控网络的两个最新模型作为案例研究，并计算它们的相干程度。与具有相似大小和组成的随机网络进行比较后发现，酵母的细胞周期调控以产生异常高水平的相干调控活动的方式构建。我们还研究了相干平均程度作为网络大小、连通性以及抑制/激活相互作用比例的函数。
