A swarm intelligence based scheme for reduction of false positives in inferred gene regulatory networks
TL;DR: This work has proposed a novel scheme, based on different swarm intelligence algorithms, to reduce the number of inferred false regulations in gene regulatory networks, and the obtained results suggest that the proposed methodology can reduce theNumber of false predictions, significantly, without using any supplementary biological information for larger gene Regulatory networks.
Abstract: A gene regulatory network reveals the regulatory relationships among genes at a cellular level. The accurate reconstruction of such networks using computational tools, from time series genetic expression data, is crucial to the understanding of the proper functioning of a living organism. Investigations in this domain focused mainly on the identification of as many true regulations as possible. This has somewhat overshadowed the reduction of false predictions in inferred networks. In the present investigation, we have proposed a novel scheme, based on different swarm intelligence algorithms, to reduce the number of inferred false regulations. We have first applied our proposed methodology on the much studied, benchmark experimental datasets of the DNA SOS repair network of Escherichia Coli. Subsequently, we have experimented upon a larger, in silico network extracted from the GeneNetWeaver database. The obtained results suggest that the proposed methodology can reduce the number of false predictions, significantly, without using any supplementary biological information for larger gene regulatory networks.
Cites background or methods from "A swarm intelligence based scheme f..."
...The functional circuitry of all living organisms is formed by genes and synergistic actions between inter related genes is the reason of all biological reactions inside a cell....
...Based on FA, PSO, BA-PSO which are swarm intelligence techniques, RNN formalism is used to investigate reverse engineering of GRNs from time series microarray datasets ....
"A swarm intelligence based scheme f..." refers background or methods in this paper
...PSO is one of the simplest, robust, effective, and easy-tocode swarm intelligence algorithms ....
...The proposed scheme is based on the amalgamation of three swarm intelligence algorithms: particle swarm optimization (PSO) algorithm , a bat algorithm (BA)  inspired version of the same, and firefly algorithm ....
"A swarm intelligence based scheme f..." refers background in this paper
...The No Free Lunch (NFL) theorem  affirms that no particular metaheuristic is the best suited for all categories of optimization problems....
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