Genomic Analysis using Higher Order Adaptive Exon Predictors
DOI:
https://doi.org/10.61841/f2wqje48Keywords:
adaptive exon predictor, computational complexity, deoxyribonucleic acid, disease medications, exon, three base periodicityAbstract
In genomics, true identifying exon regions in deoxyribonucleic acid (DNA) sections are an important activity for the identification and development of disease medications. All exon identification techniques are based on three basic periodicity (TBP) properties of exons. The techniques of adaptive sign processing have been successful compared to various other methods. This paper uses the least mean fourth (LMF) algorithm also its signed variants that includes SRLMF, SLMF also SSLMF algorithms to develop multiple adaptive exon predictors (AEPs) with less computational complexity. Eventually, a performance evaluation is performed for different AEPs using various standard gene data sequences derived from National Biotechnology Information Centre (NBI) genomic sequence database, such as Sensitivity (Sn), Precision (Pr) and Specificity (Sp) measurements.
Downloads
References
1. L.W. Ning, H. Lin Ding, J. Huang, N. Rao, and F.B. Guo, “Predicting bacterial essential genes using only sequence composition information,” Genet. Mol. Res., vol. 13, pp. 4564–4572, June 2014.
2. Li. Min, Li. Qi, G. Gamage Upeksha, W. Jian Xin, Wu. Fang Xiang, and Yi. Pan, “Prioritization of orphan disease-causing genes using topological feature and go similarity between proteins in interaction networks,” Sci. China Life Sci., vol. 57, pp. 1064–1071, November 2014.
3. T. M. Inbamalar, and R. Sivakumar, “Study of DNA sequence analysis using DSP techniques,” J. Autom. Control Eng., vol. 1, pp. 336–342, December 2013.
4. S. Maji, and D. Garg, “Progress in gene prediction: principles and challenges,” Curr. Bioinform., vol. 8,
pp. 226–243, April 2013.
5. P. Srinivasareddy, and Md. Zia Ur Rahman, “New adaptive exon predictors for identifying protein coding regions in DNA sequence,” ARPN J. Theor. Appl. Sci., vol. 11, pp. 13540–13549, December 2016.
6. H. Saberkari, M. Shamsi, H. Hamed, and M. H. Sedaaghi, “A novel fast algorithm for exon prediction in eukaryotes genes using linear predictive coding model and goertzel algorithm based on the Z-curve,” Int.
J. Comput. Appl., vol. 67, pp. 25–38, April 2013.
7. M. Wazim Ismail, Ye. Yuzhen, and T. Haixu, “Gene finding in metatranscriptomic sequences,” BMC Bioinform., vol. 15, pp. 01–08, September 2014.
8. M. Ghorbani, and K. Hamed, “Progress in gene prediction: principles and challenges,” Bioinformatics approaches for gene finding, vol. 4, pp. 12–15, September 2015.
9. S. Devendra Kumar, S. Rajiv, and S. Narayan Sharma, “An adaptive window length strategy for eukaryotic CDS prediction,” Trans. Comput. Biol. Bioinform., vol. 10, pp. 1241–1252, September 2013.
10. Y. Azuma, and S. Onami, “Automatic cell identification in the unique system of invariant embryogenesis in caenorhabditis elegans,” Biomed. Eng. Lett., vol. 4, pp. 328–337, December 2014.
11. Liu. Guangchen, and Luan. Yihui, “Identification of protein coding regions in the eukaryotic DNA sequences based on marple algorithm and wavelet packets transform,”Abstr. Appl. Anal., vol. 2014, pp. 1–14, July 2014.
12. O. Simon Haykin, “Adaptive filter theory,” 5th ed., Pearson Education Ltd., 2014, pp. 320-380.
13. H. Saberkari, M. Shamsi, H. Hamed, and M. H. Sedaaghi, “A Fast Algorithm for Exonic Regions Prediction in DNA Sequences,” J. Med. Signals Sens., vol. 3, pp. 139–149, July 2013.
14. M. Nagesh, S.V.A.V. Prasad, and M.Z. Rahman, “Efficient cardiac signal enhancement techniques based on variable step size and data normalized hybrid signed adaptive algorithms,” Int. Rev. Comp. Soft., vol. 11, pp. 1–13, October 2016.
15. M. O. Sayin, N. D. Vanli and S. S. Kozat, "A Novel Family of Adaptive Filtering Algorithms Based on The Logarithmic Cost,” IEEE Trans. Signal Process., vol. 62, no. 17, pp. 4411–4424, September 2014.
16. V. C. Gogineni and S. Mula, "A Family of Constrained Adaptive filtering Algorithms Based on Logarithmic Cost", IEEE Trans. Signal Process., pp. 1–14, July 2017.
17. S. Mula, V. C. Gogineni and A. S. Dhar, “Algorithm and Architecture Design of Adaptive Filters with Error Non-linearities,” in IEEE Trans. VLSI Syst., vol. 25, no. 9, pp. 2588-2601, September 2017.
18. S. R. Paula Diniz, “Adaptive filtering, algorithms and practical implementation,” 4th ed., Springer Publishers, 2013.
19. National Center for Biotechnology Information. Accessed: January 25, 2019. [Online]. Available: www.ncbi.nlm.nih.gov/
20. P. Srinivasareddy, Md. Zia Ur Rahman, A. Chandra Sekhar, and P. Nagireddy, "New Exon Prediction Techniques Using Adaptive Signal Processing Algorithms for Genomic Analysis," IEEE Access, Vol.7,
pp. 80800-80812, 2019.
21. S. R. Putluri, and Md. Zia Ur Rahman, “Identification of Protein Coding Region in DNA Sequence Using Novel Adaptive Exon Predictor”, J. Sci. Ind. Res., Vol. 77, pp. 1 - 5, 2018.
22. P. Srinivasareddy, Md. Zia Ur Rahman, and S. Y. Fathima, “Cloud Based Adaptive Exon Prediction for DNA Analysis”, IET Healthc. Technol., Vol. 5, No. 1, pp. 1 - 6, 2018.
Downloads
Published
Issue
Section
License

This work is licensed under a Creative Commons Attribution 4.0 International License.
You are free to:
- Share — copy and redistribute the material in any medium or format for any purpose, even commercially.
- Adapt — remix, transform, and build upon the material for any purpose, even commercially.
- The licensor cannot revoke these freedoms as long as you follow the license terms.
Under the following terms:
- Attribution — You must give appropriate credit , provide a link to the license, and indicate if changes were made . You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.
- No additional restrictions — You may not apply legal terms or technological measures that legally restrict others from doing anything the license permits.
Notices:
You do not have to comply with the license for elements of the material in the public domain or where your use is permitted by an applicable exception or limitation .
No warranties are given. The license may not give you all of the permissions necessary for your intended use. For example, other rights such as publicity, privacy, or moral rights may limit how you use the material.
