RSNET: inferring gene regulatory networks by a redundancy silencing and network enhancement technique

• Published in: BMC bioinformatics Vol. 23; no. 1; pp. 165 - 18
• Main Authors: Jiang, Xiaohan, Zhang, Xiujun
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 06.05.2022; BioMed Central; BMC
• Subjects: Accuracy; Algorithms; Applications software; Dependence; E coli; Experiments; Gene expression; Gene regulatory network; Gene silencing; Genetic engineering; Genetic regulation; Indirect interaction; Linear programming; Methods; Network enhancement; Network inference; Networks; Noise; Optimization; Optimization techniques; Parameter estimation; Performance assessment; Performance evaluation; Redundancy; Redundancy silencing; Ripening; Simulation; Software; China; Gene regulatory network; Redundancy silencing; Indirect interaction; Network inference; Network enhancement

Current gene regulatory network (GRN) inference methods are notorious for a great number of indirect interactions hidden in the predictions. Filtering out the indirect interactions from direct ones remains an important challenge in the reconstruction of GRNs. To address this issue, we developed a re...