Network controllability solutions for computational drug repurposing using genetic algorithms

Module control of network analysis in psychopathology

The network approach to characterizing psychopathology departs from traditional latent categorical and dimensional approaches. Causal interplay among symptoms contributed to dynamic psychopathology system. Therefore, analyzing the symptom clusters is critical for understanding mental disorders. Furthermore, despite extensive research studying the topological features of symptom networks, the control relationships between symptoms remain largely unclear. Here, we present a novel systematizing concept, module control, to analyze the control principle of the symptom network at a module level. We introduce Module Control Network (MCN) to identify key modules that regulate the network's behavior. By applying our approach to a multivariate psychological dataset, we discover that non-emotional modules, such as sleep-related and stress-related modules, are the primary controlling modules in the symptom network. Our findings indicate that module control can expose central symptom cluster governing psychopathology network, offering novel insights into the underlying mechanisms of mental disorders and individualized approach to psychological interventions.

Systems biology approaches to identify driver genes and drug combinations for treating COVID-19

Corona virus 19 (Covid-19) has caused many problems in public health, economic, and even cultural and social fields since the beginning of the epidemic. However, in order to provide therapeutic solutions, many researches have been conducted and various omics data have been published. But there is still no early diagnosis method and comprehensive treatment solution. In this manuscript, by collecting important genes related to COVID-19 and using centrality and controllability analysis in PPI networks and signaling pathways related to the disease; hub and driver genes have been identified in the formation and progression of the disease. Next, by analyzing the expression data, the obtained genes have been evaluated. The results show that in addition to the significant difference in the expression of most of these genes, their expression correlation pattern is also different in the two groups of COVID-19 and control. Finally, based on the drug-gene interaction, drugs affecting the identified genes are presented in the form of a bipartite graph, which can be used as the potential drug combinations.

Targeting stressor-induced dysfunctions in protein-protein interaction networks via epichaperomes

Diseases are manifestations of complex changes in protein-protein interaction (PPI) networks whereby stressors, genetic, environmental, and combinations thereof, alter molecular interactions and perturb the individual from the level of cells and tissues to the entire organism. Targeting stressor-induced dysfunctions in PPI networks has therefore become a promising but technically challenging frontier in therapeutics discovery. This opinion provides a new framework based upon disrupting epichaperomes - pathological entities that enable dysfunctional rewiring of PPI networks - as a mechanism to revert context-specific PPI network dysfunction to a normative state. We speculate on the implications of recent research in this area for a precision medicine approach to detecting and treating complex diseases, including cancer and neurodegenerative disorders.

Multiobjective Optimization of Chemically Assisted Magnetic Abrasive Finishing (MAF) on Inconel 625 Tubes Using Genetic Algorithm: Modeling and Microstructural Analysis

The demand for the surface integrity of complex structures is drastically increasing in the field of aerospace, marine and automotive industry. Therefore, Inconel alloy, due to its superior attributes, has a wide scope for the improvement in surface integrity. To achieve the precise surface finish and enhance the process performance, process optimization is necessary. In current paper, chemically assisted MAF process parameters were optimized using the genetic algorithm (GA) approach during finishing of Inconel 625 tubes. Regression models were developed for improvement in internal surface finish (PIISF), improvement in external surface finish (PIESF), and material removal (MR) using Design expert software. Then, the surface microstructure of Inconel 625 tubes was analyzed using scanning electron microscopy (SEM). ANOVA analysis predicts that processing time and abrasive size have the highest percentage contribution in improving the surface finish and material removal. Multioptimization results suggested to set the level of processing time (A) at 75 min, surface rotational speed (B) at 60 RPM, weight % of abrasives (C) at 30%, chemical concentration (D) at 500 gm/lt and abrasive size (E) at 40 microns to obtain optimal parameters for PIISF, PIESF and MR responses.