Optimizing DNA sequences using Tetra-nucleotide RankList

Author

Ajwad, Rasif ; Hossain, Syed Nayem ; Hasan, M. Anwar

Author_Institution

Dept. of Comput. Sci. & Eng., Islamic Univ. of Technol., Gazipur, Bangladesh

fYear

2014

fDate

10-12 April 2014

Firstpage

1

Lastpage

4

Abstract

Recent advancement in the field of life science has caused the generation of massive amount of genomic data. Storing such huge amount of data require a lot of memory. However, by using efficient algorithm we can optimize the size of the dataset and save memory storage. In this paper we have proposed an algorithm which uses Tetra-nucleotide RankList for optimizing the storage requirement for storing DNA sequences in database which can be easily retrieved in a time efficient manner. Tetra-nucleotide RankList has been generated by testing several DNA sequences to confirm the uniformity of the RankList over all DNA sequences. The algorithm has been applied on the genome sequences of different bacteria and viruses and the space for storing those DNA sequences has been reduced up to 30%.

Keywords

DNA; biocomputing; genomics; storage allocation; Tetra-nucleotide RankList; genome sequences; genomic data; memory storage; optimizing DNA sequences; Algorithm design and analysis; Bioinformatics; Biological cells; DNA; Databases; Genomics; Training; DNA sequences; RankList; memory storage; tetra-nucleotide;

fLanguage

English

Publisher

ieee

Conference_Titel

Electrical Engineering and Information & Communication Technology (ICEEICT), 2014 International Conference on

Conference_Location

Dhaka

Print_ISBN

978-1-4799-4820-8

Type

conf

DOI

10.1109/ICEEICT.2014.6919125

Filename

6919125