Solving multiple sequence alignment problems by using a swarm intelligent optimization based approach

In this article, the alignment of multiple sequences is examined through swarm intelligence based an improved particle swarm optimization (PSO). A random heuristic technique for solving discrete optimization problems and realistic estimation was recently discovered in PSO. The PSO approach is a nature-inspired technique based on intelligence and swarm movement. Thus, each solution is encoded as “chromosomes” in the genetic algorithm (GA). Based on the optimization of the objective function, the fitness function is designed to maximize the suitable components of the sequence and reduce the unsuitable components of the sequence. The availability of a public benchmark data set such as the Bali base is seen as an assessment of the proposed system performance, with the potential for PSO to reveal problems in adapting to better performance. This proposed system is compared with few existing approaches such as deoxyribonucleic acid (DNA) or ribonucleic acid (RNA) alignment (DIALIGN), PILEUP8, hidden Markov model training (HMMT), rubber band technique-genetic algorithm (RBT-GA) and ML-PIMA. In many cases, the experimental results are well implemented in the proposed system compared to other existing approaches

Towards a Smart World: Hazard Levels for Monitoring of Autonomous Vehicles’ Swarms

This work explores the creation of quantifiable indices to monitor the safe operations and movement of families of autonomous vehicles (AV) in restricted highway-like environments. Specifically, this work will explore the creation of ad-hoc rules for monitoring lateral and longitudinal movement of multiple AVs based on behavior that mimics swarm and flock movement (or particle swarm motion). This exploratory work is sponsored by the Emerging Leader Seed grant program of the Mineta Transportation Institute and aims at investigating feasibility of adaptation of particle swarm motion to control families of autonomous vehicles. Specifically, it explores how particle swarm approaches can be augmented by setting safety thresholds and fail-safe mechanisms to avoid collisions in off-nominal situations. This concept leverages the integration of the notion of hazard and danger levels (i.e., measures of the “closeness” to a given accident scenario, typically used in robotics) with the concept of safety distance and separation/collision avoidance for ground vehicles. A draft of implementation of four hazard level functions indicates that safety thresholds can be set up to autonomously trigger lateral and longitudinal motion control based on three main rules respectively based on speed, heading, and braking distance to steer the vehicle and maintain separation/avoid collisions in families of autonomous vehicles. The concepts here presented can be used to set up a high-level framework for developing artificial intelligence algorithms that can serve as back-up to standard machine learning approaches for control and steering of autonomous vehicles. Although there are no constraints on the concept’s implementation, it is expected that this work would be most relevant for highly-automated Level 4 and Level 5 vehicles, capable of communicating with each other and in the presence of a monitoring ground control center for the operations of the swarm

Efficient Two-Level Swarm Intelligence Approach for Multiple Sequence Alignment

This paper proposes two-level particle swarm optimization (TL-PSO), an efficient PSO variant that addresses two levels of optimization problem. Level one works on optimizing dimension for entire swarm, whereas level two works for optimizing each particle's position. The issue addressed here is one of the most challenging multiple sequence alignment (MSA) problem. TL-PSO deals with the arduous task of determination of exact sequence length with most suitable gap positions in MSA. The two levels considered here are: to obtain optimal sequence length in level one and to attain optimum gap positions for maximal alignment score in level two. The performance of TL-PSO has been assessed through a comparative study with two kinds of benchmark dataset of DNA and RNA. The efficiency of the proposed approach is evaluated with four popular scoring schemes at specific parameters. TL-PSO alignments are compared with four PSO variants, i.e. S-PSO, M-PSO, ED-MPSO and CPSO-Sk, and two leading alignment software, i.e. ClustalW and T-Coffee, at different alignment scores. Hence obtained results prove the competence of TL-PSO at accuracy aspects and conclude better score scheme