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Open access peer-reviewed Edited Volume

Computational Biology and Applied Bioinformatics

Edited by Heitor Lopes

Universidade Federal de Pelotas, Brazil


Nowadays it is difficult to imagine an area of knowledge that can continue developing without the use of computers and informatics. It is not different with biology, that has seen an unpredictable growth in recent decades, with the rise of a new discipline, bioinformatics, bringing together molecular biology, biotechnology and information technology. More recently, the development of high throughput techniques, such as microarray, mass spectrometry and DNA sequencing, has increased the need of computational support to collect, store, retrieve, analyze, and correlate huge data sets of complex information. On the other hand, the growth of the computational power for processing and storage has also increased the necessity for deeper knowledge in the field. The development of bioinformatics has allowed now the emergence of systems biology, the study of the interactions between the components of a biological system, and how these interactions give rise to the function and behavior of a living being. This book presents some theoretical issues, reviews, and a variety of bioinformatics applications. For better understanding, the chapters were grouped in two parts. In Part I, the chapters are more oriented towards literature review and theoretical issues. Part II consists of application-oriented chapters that report case studies in which a specific biological problem is treated with bioinformatics tools.

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Computational Biology and Applied BioinformaticsEdited by Heitor Lopes

Published: September 2nd 2011

DOI: 10.5772/772

ISBN: 978-953-307-629-4

eBook (PDF) ISBN: 978-953-51-5544-7

Copyright year: 2011

Books open for chapter submissions

60864 Total Chapter Downloads

15 Crossref Citations

32 Web of Science Citations

34 Dimensions Citations


Open access peer-reviewed

1. Molecular Evolution & Phylogeny: What, When, Why & How?

By Pandurang Kolekar, Mohan Kale and Urmila Kulkarni-Kale


Open access peer-reviewed

2. Understanding Protein Function - The Disparity Between Bioinformatics and Molecular Methods

By Katarzyna Hupert-Kocurek and Jon M. Kaguni


Open access peer-reviewed

3. In Silico Identification of Regulatory Elements in Promoters

By Vikrant Nain, Shakti Sahi and Polumetla Ananda Kumar


Open access peer-reviewed

4. In Silico Analysis of Golgi Glycosyltransferases: A Case Study on the LARGE-Like Protein Family

By Kuo-Yuan Hwa, Wan-Man Lin and Boopathi Subramani


Open access peer-reviewed

5. MicroArray Technology - Expression Profiling of MRNA and MicroRNA in Breast Cancer

By Aoife Lowery, Christophe Lemetre, Graham Ball and Michael Kerin


Open access peer-reviewed

6. Computational Tools for Identification of microRNAs in Deep Sequencing Data Sets

By Manuel A. S. Santos and Ana Raquel Soares


Open access peer-reviewed

7. Computational Methods in Mass Spectrometry-Based Protein 3D Studies

By Rosa M. Vitale, Giovanni Renzone, Andrea Scaloni and Pietro Amodeo


Open access peer-reviewed

8. Synthetic Biology & Bioinformatics Prospects in the Cancer Arena

By Lígia R. Rodrigues and Leon D. Kluskens


Open access peer-reviewed

9. An Overview of Hardware-Based Acceleration of Biological Sequence Alignment

By Laiq Hasan and Zaid Al-Ars


Open access peer-reviewed

10. Retrieving and Categorizing Bioinformatics Publications through a MultiAgent System

By Andrea Addis, Giuliano Armano, Eloisa Vargiu and Andrea Manconi


Open access peer-reviewed

11. GRID Computing and Computational Immunology

By Ferdinando Chiacchio and Francesco Pappalardo


Open access peer-reviewed

12. A Comparative Study of Machine Learning and Evolutionary Computation Approaches for Protein Secondary Structure Classification

By César Manuel Vargas Benítez, Chidambaram Chidambaram, Fernanda Hembecker and Heitor Silvério Lopes


Open access peer-reviewed

13. Functional Analysis of the Cervical Carcinoma Transcriptome: Networks and New Genes Associated to Cancer

By Mauricio Salcedo, Sergio Juarez-Mendez, Vanessa Villegas-Ruiz, Hugo Arreola, Oscar Perez, Guillermo Gómez, Edgar Roman-Bassaure, Pablo Romero, Raúl Peralta


Open access peer-reviewed

14. Number Distribution of Transmembrane Helices in Prokaryote Genomes

By Ryusuke Sawada and Shigeki Mitaku


Open access peer-reviewed

15. Classifying TIM Barrel Protein Domain Structure by an Alignment Approach Using Best Hit Strategy and PSI-BLAST

By Chia-Han Chu, Chun Yuan Lin, Cheng-Wen Chang, Chihan Lee and Chuan Yi Tang


Open access peer-reviewed

16. Identification of Functional Diversity in the Enolase Superfamily Proteins

By Kaiser Jamil and M. Sabeena


Open access peer-reviewed

17. Contributions of Structure Comparison Methods to the Protein Structure Prediction Field

By David Piedra, Marco d'Abramo and Xavier de la Cruz


Open access peer-reviewed

18. Functional Analysis of Intergenic Regions for Gene Discovery

By Li M. Fu


Open access peer-reviewed

19. Prediction of Transcriptional Regulatory Networks for Retinal Development

By Ying Li, Haiyan Huang and Li Cai


Open access peer-reviewed

20. The Use of Functional Genomics in Synthetic Promoter Design

By Michael L. Roberts


Open access peer-reviewed

21. Analysis of Transcriptomic and Proteomic Data in Immune-Mediated Diseases

By Sergey Bruskin, Alex Ishkin, Yuri Nikolsky, Tatiana Nikolskaya and Eleonora Piruzian


Open access peer-reviewed

22. Emergence of the Diversified Short ORFeome by Mass Spectrometry-Based Proteomics

By Hiroko Ao-Kondo, Hiroko Kozuka-Hata and Masaaki Oyama


Open access peer-reviewed

23. Acrylamide Binding to Its Cellular Targets: Insights from Computational Studies

By Emmanuela Ferreira de Lima and Paolo Carloni


Edited Volume and chapters are indexed in

  • Worldcat
  • OpenAIRE
  • Google Scholar
  • AZ ebsco
  • Base
  • CNKI

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