NDLI: Designing of interacting RNAs using Artificial Bee Colony (ABC) algorithm

Content Provider	IEEE Xplore Digital Library
Author	Thaiprasit, J. Kaewkamnerdpong, B. Chatphakawan, P. Ruangkae, N. Yamsin, P. Leelachuthipong, N. Meechai, A.
Copyright Year	2015
Description	Author affiliation: Dept. of Chem. Eng., King Mongkut's Univ. of Technol. Thonburi, Bangkok, Thailand (Chatphakawan, P.; Ruangkae, N.; Yamsin, P.; Leelachuthipong, N.; Meechai, A.) \|\| Fac. of Eng., King Mongkut's Univ. of Technol. Thonburi, Bangkok, Thailand (Thaiprasit, J.; Kaewkamnerdpong, B.)
Abstract	One of polymeric biological molecules called ribonucleic acid (RNA) is involved in diverse biological roles in regulation of gene expression. Generally, secondary structures of RNA determine their functions in living organisms. In medical field, various structures of synthetic RNAs are much needed at present. Recently, an RNA design tool has been developed to identify optimal RNA sequences for the desired interacting RNAs based on Genetic Algorithm (GA). In an attempt to improve the design tool, we applied Artificial Bee Colony (ABC) algorithm, which can outperform several population-based methods including GA. To achieve this goal, we developed an ABC-based RNA design tool and employed this tool to design 6 different interacting RNA models. The design performance from ABC-based tool for all models were compared with that from the existing GA-based tool. It was found that the ABC-based tool and the GA-based tools equally perform in all 6 models. Both tools can achieve the fitness score above 0.996. Although the ABC-based tool could be used to design interacting RNA more reliably, it seems to require more design time, especially in the models with larger RNA length. Thus, with further improvement, this tool shall be a promising tool for designing synthetic RNA devices for biomedical applications.
Starting Page	1
Ending Page	5
File Size	494216
Page Count	5
File Format	PDF
e-ISBN	9781467391580
DOI	10.1109/BMEiCON.2015.7399538
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2015-11-25
Publisher Place	Thailand
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Decision support systems Algorithm design and analysis Analytical models Handheld computers RNA RNA-RNA interaction Design tools ABC algorithm Optimization
Content Type	Text
Resource Type	Article

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