Zito Francesco, Cutello Vincenzo, Pavone Mario
Department of Mathematics and Computer Science, University of Catania, 95125 Catania, Italy.
Entropy (Basel). 2023 Aug 15;25(8):1214. doi: 10.3390/e25081214.
The ability to simulate gene expression and infer gene regulatory networks has vast potential applications in various fields, including medicine, agriculture, and environmental science. In recent years, machine learning approaches to simulate gene expression and infer gene regulatory networks have gained significant attention as a promising area of research. By simulating gene expression, we can gain insights into the complex mechanisms that control gene expression and how they are affected by various environmental factors. This knowledge can be used to develop new treatments for genetic diseases, improve crop yields, and better understand the evolution of species. In this article, we address this issue by focusing on a novel method capable of simulating the gene expression regulation of a group of genes and their mutual interactions. Our framework enables us to simulate the regulation of gene expression in response to alterations or perturbations that can affect the expression of a gene. We use both artificial and real benchmarks to empirically evaluate the effectiveness of our methodology. Furthermore, we compare our method with existing ones to understand its advantages and disadvantages. We also present future ideas for improvement to enhance the effectiveness of our method. Overall, our approach has the potential to greatly improve the field of gene expression simulation and gene regulatory network inference, possibly leading to significant advancements in genetics.
模拟基因表达和推断基因调控网络的能力在医学、农业和环境科学等各个领域有着广泛的潜在应用。近年来,作为一个有前景的研究领域,用于模拟基因表达和推断基因调控网络的机器学习方法受到了广泛关注。通过模拟基因表达,我们可以深入了解控制基因表达的复杂机制以及它们如何受到各种环境因素的影响。这些知识可用于开发治疗遗传疾病的新方法、提高作物产量以及更好地理解物种的进化。在本文中,我们通过关注一种能够模拟一组基因的基因表达调控及其相互作用的新方法来解决这个问题。我们的框架使我们能够模拟基因表达调控对可能影响基因表达的变化或扰动的响应。我们使用人工和真实基准来实证评估我们方法的有效性。此外,我们将我们的方法与现有方法进行比较,以了解其优缺点。我们还提出了未来改进的思路,以提高我们方法的有效性。总体而言,我们的方法有可能极大地改善基因表达模拟和基因调控网络推断领域,可能会在遗传学方面取得重大进展。