The biological sciences have been among the most exciting and intensely pursued fields of science for the past several decades. The advancement of high-throughput technologies that generate large scale biological data as well as the development of related computational tools has enabled global efforts at understanding complex biological systems and brought revolutionary changes to biological research.

Handbook of Research on Computational and Systems Biology: Interdisciplinary Applications summarizes some of the most recent research carried out in computational biology and systems biology to encourage and guide future study. Submissions to this comprehensive text present methods, tools, and applications developed and considered by many leading experts around the globe.

Coverage:

The many academic areas covered in this publication include, but are not limited to:

Biclustering of DNA microarray data
Detecting epistasis in genome-wide association studies
DNA microarray data
Genomic DNA sequence
Granger causality
Predictive and personalized medicine
Privacy considerations for systems biology applications
Vaccine Development
Virtual Screening
Visualization of protein 3d structures

Reviews & Statements

This book, with its well-done illustrations and contributions from leading experts, will be of immense help for novices and researchers interested in this field.

– Omer Iqbal, MD, FACC, FESC, Loyola University Medical Center. Doody's Book Review 2011.

Handbook of Research on Computational and Systems Biology: Interdisciplinary Applications has been developed to summarize and present some of the most recent research carried out in these fields to encourage and guide future research. During the book development process, several hundred world-leading scientists and researchers in computational biology and systems biology were invited to contribute a chapter to the book. Each submitted manuscript was reviewed by at least three reviewers in a double-blind review process. The reviewers may be Editorial Advisory Board members, contributing authors, or external reviewers. From the forty-three submissions, twenty-eight were accepted to appear in the book. The final book is a collection of eighteen thorough reviews and ten original research articles on the state-of-the-art development in the fields of computational biology and systems biology. Methods, tools, and applications of these fields are presented by many leading experts around the globe. The book chapters are written with the objective that novices in these fields will be able to learn the concepts and apply the techniques in their own studies and research. Active researchers in these fields may also appreciate the timely and in-depth review of existing literature and may be inspired to carry out innovative work to move biological sciences forward.

– Limin Angela Liu, Shanghai Jiao Tong University, China; Dongqing Wei, Shanghai Jiao Tong University, China; and Yixue Li, Shanghai Jiao Tong University, China

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Editor/Author Biographies

Limin Angela Liu, PhD, obtained her BSc degree from Tsinghua University, Beijing and her PhD degree from Carnegie Mellon University, USA. After postdoctoral research at Johns Hopkins University, USA, she became Associate Professor at Shanghai Jiao Tong University. Her recent work includes the establishment of an ab initio method for the prediction of transcription factor binding sites and a novel “tethered-hopping model” for describing the effects of protein-protein interactions on the formation and stability of ternary protein-DNA complexes.

Dongqing Wei, PhD, is the acting head of the Department of Bioinformatics and Biostatistics, College of Life Science and Biotechnology, Shanghai Jiao Tong University, Shanghai, China, the editor-in-Chief of the journal “Interdisciplinary Sciences - Computational Life Sciences”, and the chairman of the International Association of Scientists in the Interdisciplinary Areas (IASIA). Prof. Wei’s research is in the general area of structural bioinformatics. He is best known for his ground-breaking work on theory of complicated liquids. He, along with Prof. Gren Patey, has found that strongly interacting dipolar spheres can form a ferroelectric nematic phase. This was the first demonstration that dipolar forces alone can create an orientationally ordered liquid state. It is also the first time that the existence of a ferroelectric nematic phase has been established for a model liquid. This discovery solved a long standing problem in theoretical physics, and created a new direction in search for new liquid crystal materials (Phys. Rev. Lett. 68, 2043, 1992, cited about 180 times). In recent years, Prof. Wei has developed tools of molecular simulation and applied them to study biological systems with relevance to computer-aided drug design and structural biology. With more than 150 journal papers and greater than 2000 citations (Science Citation Index), he is becoming a leading figure in the area of structural bioinformatics.

Yixue Li, PhD, was born in Xinjiang, China. Currently, he is the director in Shanghai Center for Bioinformation Technology, vice director and a full research professor of Key Laboratory of Systems Biology at Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences. Dr. Li received his BSc. and Msc. degrees in theoretical physics from Xinjiang University, China, in 1982 and 1987, respectively, and his Ph.D. degree in theoretical physics from the University of Heidelberg, Germany, in 1996. After Dr. Li got his Ph.D. degree he worked as a bioinformatics research staff in European Molecular Biology Laboratory (EMBL) from 1997-2000, and came back to Shanghai, China in the middle of 2000. Dr.Li's research interests include bioinformatics, systems biology and computational biology. Dr. Li has published more than 100 journal papers in various international scientific journals, such as Science, Nature Genetics, Nature Biotechnology, PNAS, Bioinformatics, NAR, Plos Computational Biology, Plos One, Molecular Systems Biology, Molecular Cellular Proteomics, Oncogene, BMC Bioinformatics, Genome Biology, etc., and his research results have been cited by more than 1500 researchers worldwide in books, theses, journal and conference papers. Dr. Li has served as an editorial board member for 5 scientific journals.

Huimin Lei, MD, obtained her degree from Inner Mongolia University of Science and Technology, China in 2004. She then became a lecturer and academic advisor for medical students at Baotou Health School,China. Since 2008, she became an Assistant Editor for the journal “Interdisciplinary Sciences – Computational Life Sciences” and an office administrator of Prof. Dongqing Wei’s lab at Shanghai Jiao Tong University. She has served on the organizing committees of several international conferences, including “Theory and Applications of Computational Chemistry – 2008” (TACC2008) and the annual “International Conference on Computational and Systems Biology” (ICCSB) meeting series.

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Editorial Advisory Board

Tatsuya Akutsu, Kyoto University, Japan
Joel Bader, Johns Hopkins University, USA
Paola Causin, Universita' degli Studi di Milano, Italy
Kun-Mao Chao, National Taiwan University, Taiwan
Flávio Codeço Coelho, Gulbenkian Institute of Science, Portugal
Pietro Cortona, Propriété et Modélisation des Solides, France
Yongsheng Ding, Donghua University, China
Todor Dudev, Academia Sinica, Taiwan
Andreas Fuerholz, Nestlé Research Center, Switzerland
Dietlind Gerloff, University of California, Santa Cruz, USA
Haijun Gong, Carnegie Mellon University, USA
James A. Holzwarth, Nestlé Research Center, Switzerland
Timo Jacob, Universität Ulm, Germany
Igor Jurisica, University of Toronto, Canada
Yiannis N. Kaznessis, University of Minnesota, USA
Samee Ullah Khan, North Dakota State University, USA
Jens Lagergren, Stockholm Bioinformatics Center, Sweden
Qi Liu, Shanghai Jiao Tong University, China
Thomas Manke, Max Planck Institute for Molecular Genetics, Germany
Jason McDermott, Pacific Northwest National Laboratory, USA
Satoru Miyano, University of Tokyo, Japan
Kiran Mukhyala, Genentech, Inc., USA
Madhusudan Natarajan, Pfizer Research Technology Center, USA
Victoria Petri, Medical College of Wisconsin, USA
Piotr Piecuch, Michigan State University, USA
Jean-Philip Piquemal, Université Pierre et Marie Curie, France
George V. Popescu, University Politehnica of Bucharest, Romania
Zimei Rong, Queen Mary University of London, UK
Dennis R. Salahub, University of Calgary, Canada
Reinhard Schneider, EMBL, Germany
Alexander Schoenhuth, University of California at Berkeley, USA
Ora Schueler-Furman, Hebrew University, Israel
Russell Schwartz, Carnegie Mellon University, USA
Temple F. Smith, Boston University, USA
Fengzhu Sun, University of Southern California, USA
Jerzy Tiuryn, University of Warsaw, Poland
Jack Tuszynski, University of Alberta, Canada
Esko Ukkonen, University of Helsinki, Finland
Lusheng Wang, City University of Hong Kong, Hong Kong
Zhuo Wang, Shanghai Jiao Tong University, China
Limsoon Wong, National University of Singapore, Singapore
Yu (Brandon) Xia, Boston University, USA
Zhaolei Zhang, University of Toronto, Canada
Deyou Zheng, Albert Einstein College of Medicine of Yeshiva University, USA
Xianghong Jasmine Zhou, University of Southern California, USA