2021/07/12 by Cheng Yuan, Yuan, Cheng, Zu-Yu Qian +5
Biochemistry, Genetics and Molecular Biology · #Bioinformatics and Genomic Networks #Biological Physics (physics.bio-ph) #FOS: Biological sciences #FOS: Physical sciences #Gene Regulatory Network Analysis #Molecular Networks (q-bio.MN) #Photosynthetic Processes and Mechanisms #Quantitative Methods (q-bio.QM)
paper · pdf · doi:10.48550/arxiv.2107.05478
openalex publication_date 2021/07/12 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28
Numerous real-world systems can be naturally modeled as multilayer networks, enabling an efficient way to characterize those complex systems. Much evidence in the context of system biology indicated that the collections between different molecular networks can dramatically impact the global network functions. Here, we focus on the molecular multiplex networks coupled by the transcriptional regulatory network (TRN) and protein-protein interaction (PPI) network, exploring the controllability and energy requiring in these types of molecular multiplex networks. We find that the driver nodes tend to avoid essential or pathogen-related genes. Yet, imposing the external inputs to these essential or pathogen-related genes can remarkably reduce the energy cost, implying their crucial role in network control. Moreover, we find that lower minimal driver nodes as well as energy requiring are associated with disassortative coupling between TRN and PPI networks. Our findings in several species provide comprehensive understanding of genes' roles in biology and network control.