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Title: Promoter prediction using DNA numerical representation and neural network : case study with three organisms
Authors: Arniker, SB
Kwan, HK
Law, NF 
Lun, DPK 
Keywords: Arabidopsis thaliana
DNA numerical representation
Drosophila melanogaster
Neural networks
Promoter recognition
Issue Date: 2011
Publisher: IEEE
Source: 2011 Annual IEEE India Conference (INDICON), 16-18 December 2011, Hyderabad, p. 1-4 How to cite?
Abstract: Promoter recognition in various organisms is an area of interest in bioinformatics. In this paper, a feed-forward neural network classifier is presented to predict promoters in three organisms using a DNA numerical representation approach. The proposed system was found to be able to predict promoters with a sensitivity of 87%, 87%, 99% while reducing false prediction rate for non-promoter sequences with a specificity of 92%, 94%, 99% for the human, Drosophila melanogaster, and Arabidopsis thaliana sequences respectively. The results show that feed-forward neural networks can extract the statistical characteristics of promoters efficiently, and that the 2-bit binary coding for DNA data is suitable for the Berkeley Human and Drosophila datasets and the 4-bit binary is suitable for the TAIR Arabidopsis thaliana data sets. Another result demonstrated here is that the proposed prediction system is reconfigurable and versatile with a reduced architecture and computational complexity.
ISBN: 978-1-4577-1110-7
DOI: 10.1109/INDCON.2011.6139397
Appears in Collections:Conference Paper

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