Efficient discrete firefly algorithm for Ctrie based caching of multiple sequence alignment on optimally scheduled parallel machines

CAAI Transactions on Intelligence Technology

article

Soniya Lalwani¹  Harish Sharma¹  Abhay Verma¹  Rajesh Kumar² 

[1] Department of Computer Science & Engineering, Rajasthan Technical University;Department of Electrical Engineering, Malaviya National Institute of Technology

关键词: query processing;    parallel machines;    computational complexity;    minimisation;    cache storage;    swarm intelligence;    bioinformatics;    search problems;    particle swarm optimisation;    scheduling;    statistical testing;    makespan minimisation;    swarm-intelligence based implementation;    Ctrie based caching;    MSA;    DFFA;    efficient discrete firefly algorithm;    multiple sequence alignment;    optimally scheduled parallel machines;    two-level strategy;    complex heterogeneous sequences;    pairwise alignment;    multiple queries;    multiclient problem;    parallel connected machines;    BAliBASE 4 dataset;    MUSCLE dataset;    statistical significance testing;    one-way ANOVA;    Bonferroni posthoc analysis;    C1160 Combinatorial mathematics;    C1180 Optimisation techniques;    C6120 File organisation;    C6150J Operating systems;    C6170 Expert systems and other AI software and techniques;    C7250R Information retrieval techniques;    C7330 Biology and medical computing;   

DOI  :  10.1049/trit.2018.1040

学科分类：数学（综合）

来源: Wiley

【 摘 要 】

This study introduces a two-level strategy for efficient execution of multiple sequence alignment (MSA) of complex heterogeneous sequences. The two levels of the proposed technique are comprised of: designing the discrete firefly algorithm (DFFA) for the formation and implementation of makespan minimisation on parallel machines, followed by performing Ctrie-based caching for pairwise alignment to reduce the load on the data servers for handling multiple queries. The proposed strategy addresses a multi-client problem that aims to acquire the full advantage of the computational power of parallel connected machines. Further, it is shown that the inclusion of Ctrie as caching mechanism successively improves the performance of the system with accretion in several sequences. Performance of proposed DFFA is also compared with discrete versions of four swarm intelligence based algorithms at the criteria of makespan minimisation and the rate of convergence on two kinds of complex and diverse datasets. The work is unique in this sense: it is the first swarm-intelligence-based implementation for the addressed problem; it is so far the first approach for Ctrie based caching of the MSA on the scheduled parallel machines; hybridisation of DFFA with Ctrie for caching the MSA results is also a novel implementation.

【 授权许可】

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