Genomic Sequence Analysis for Exon Prediction Using Adaptive Signal Processing Algorithms

This book addresses the issue of improving the accuracy in exon prediction in DNA sequences using various adaptive techniques based on different performance measures that are crucial in disease diagnosis and therapy. First, the authors present an overview of genomics engineering, structure of DNA sequence and its building blocks, genetic information flow in a cell, gene prediction along with its significance, and various types of gene prediction methods, followed by a review of literature starting with the biological background of genomic sequence analysis. Next, they cover various theoretical considerations of adaptive filtering techniques used for DNA analysis, with an introduction to adaptive filtering, properties of adaptive algorithms, and the need for development of adaptive exon predictors (AEPs) and structure of AEP used for DNA analysis. Then, they extend the approach of least mean squares (LMS) algorithm and its sign-based realizations with normalization factor for DNA analysis. They also present the normalized logarithmic-based realizations of least mean logarithmic squares (LMLS) and least logarithmic absolute difference (LLAD) adaptive algorithms that include normalized LMLS (NLMLS) algorithm, normalized LLAD (NLLAD) algorithm, and their signed variants. This book ends with an overview of the goals achieved and highlights the primary achievements using all proposed techniques. This book is intended to provide rigorous use of adaptive signal processing algorithms for genetic engineering, biomedical engineering, and bioinformatics and is useful for undergraduate and postgraduate students. This will also serve as a practical guide for Ph.D. students and researchers and will provide a number of research directions for further work. Features - Presents an overview of genomics engineering, structure of DNA sequence and its building blocks, genetic information flow in a cell, gene prediction along with its significance, and various types of gene prediction methods - Covers various theoretical considerations of adaptive filtering techniques used for DNA analysis, introduction to adaptive filtering, properties of adaptive algorithms, need for development of adaptive exon predictors (AEPs), and structure of AEP used for DNA analysis - Extends the approach of LMS algorithm and its sign-based realizations with normalization factor for DNA analysis - Presents the normalized logarithmic-based realizations of LMLS and LLAD adaptive algorithms that include normalized LMLS (NLMLS) algorithm, normalized LLAD (NLLAD) algorithm, and their signed variants - Provides an overview of the goals achieved and highlights the primary achievements using all proposed techniques Dr. Md. Zia Ur Rahman is a professor in the Department of Electronics and Communication Engineering at Koneru Lakshmaiah Educational Foundation (K. L. University), Guntur, India. His current research interests include adaptive signal processing, biomedical signal processing, genetic engineering, medical imaging, array signal processing, medical telemetry, and nanophotonics. Dr. Srinivasareddy Putluri is currently a Software Engineer at Tata Consultancy Services Ltd., Hyderabad. He received his Ph.D. degree (Genomic Signal Processing using Adaptive Signal Processing algorithms) from the Department of Electronics and Communication Engineering at Koneru Lakshmaiah Educational Foundation (K. L. University), Guntur, India. His research interests include genomic signal processing and adaptive signal processing. He has published 15 research papers in various journals and proceedings. He is currently a reviewer of publishers like the IEEE Access and IGI.

Prof. Md Zia Ur Rahman is a Professor with the Department of Electronics and Communication Engineering, K. L. University, Koneru Lakshmaiah Educational Foundation Guntur, India. His current research interests include adaptive signal processing, biomedical signal processing, medical imaging, array signal processing, MEMS, Nano photonics. Srinivasareddy Putluri, M.Tech., Ph.D is with the Department of Electronics and Communication Engineering, Koneru Lakshmaiah Educational Foundation, K. L. University, Vaddeswaram, Guntur, India. His research interests include genomic signal processing and adaptive signal processing.

1. Introduction. 2. Review of Literature. 3. Sign LMS Based Realization of Adaptive Filtering Techniques for Exon Prediction. 4. Normalization Based Realization of Adaptive Filtering Techniques for Exon Prediction. 5. Logarithmic Based Realization of Adaptive Filtering Techniques for Exon Prediction. 6. Conclusions and Future Perspective