Frontiers in Computational and Systems Biology

Frontiers in Computational and Systems Biology


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Frontiers in Computational and Systems Biology by Jianfeng Feng

Biological and biomedical studies have entered a new era due to the widespread use of mathematical models and computational approaches. What was no more than a theoretician's fantasy 20 years ago has become the blooming field of computational biology. Furthermore, this powerful and stimulating research paradigm in biological studies has in turn led to new developments in mathematics, physics and computer science.

This unique volume surveys state-of-the-art research on statistical methods in molecular and systems biology, with contributions from leading experts in the field. Each chapter discusses theoretical aspects, applications to biological problems, and possible future developments. Understanding the biology at a molecular and system level stands among the most exciting challenges faced by modern science. This text clearly demonstrates how computational and mathematical approaches continue to address this challenge.

Topics and features:

• Presents the use of thermodynamic models to analyze gene regulatory mechanisms
• Reviews major algorithms for RNA secondary structure prediction, with a focus on ensemble-based approaches
• Discusses how developments in the area of oligo arrays has led to a better understanding of the array mechanism and improvements in microarray data analysis
• Examines the application of models of shastic processes in nonequilibrium thermodynamics and biological signal transduction
• Describes phylogenetic footprinting methods for TFBS identification, based on alignments
• Introduces penalized regression-based methods for constructing genetic interaction or regulatory networks
• Investigates the specific role played by irreversible Markov processes in modeling cellular biochemical systems
• Explores the concept of gene modules in a transcriptional regulatory network

With reviews of current hot topics in computational biology and systems biology, supplied by an international selection of top researchers, this is an essential text for researchers and graduate students in computational biology, biology and mathematics.

Product Details

ISBN-13: 9781447125709
Publisher: Springer London
Publication date: 09/05/2012
Series: Computational Biology , #15
Edition description: 2010
Pages: 24
Product dimensions: 6.10(w) x 9.25(h) x 0.04(d)

Table of Contents

Analysis of Combinatorial Gene Regulation with Thermodynamic Models
Chieh-Chun Chen and Sheng Zhong

RNA Secondary Structure Prediction and Gene Regulation by Small RNAs
Ye Ding

Some Critical Data Quality Control Issues of Oligoarrays
Wenjiang J. Fu, Ming Li, Yalu Wen and Likit Preeyanon

Shastic-process Approach to Nonequilibrium Thermodynamics and Biological Signal Transduction
Hao Ge

Granger Causality: Theory and Applications
Shuixia Guo, Christophe Ladroue and Jianfeng Feng

Transcription Factor Binding Site Identification by Phylogenetic Footprinting
Haiyan Hu and Xiaoman Li

Learning Network from High-dimensional Array Data
Li Hsu, Jie Peng and Pei Wang

Computational Methods for Predicting Domain-Domain Interactions
Hyunju Lee, Ting Chen and Fengzhu Sun

Irreversible Shastic Processes, Coupled Diffusions and Systems Biochemistry
Pei-Zhe Shi and Hong Qian

Probability Modeling and Statistical Inference in Periodic Cancer Screening
Dongfeng Wu and Gary L. Rosner

On Construction of the Smallest One-sided Confidence Intervals and its Application in Identifying the Minimum Effective Dose
Weizhen Wang

Group Variable Selection Methods and Their Applications in Analysis of Genomic Data
Jun Xie and Lingmin Zeng

Modeling Protein-Signaling Networks with Granger Causality Test
Wenqiang Yang and Qiang Luo

DNA Copy Number Profiling in Normal and Tumor Genomes
Nancy R. Zhang

Spatial Disease Surveillance: Methods and Applications
Tonglin Zhang

From QTL Mapping to eQTL Analysis
Wei Zhang and Jun S Liu

An Evaluation of Gene Module Concepts in the Interpretation of Gene Expression Data
Xianghua Zhang and Hongyu Zhao

Readout of Spike Waves in a Microcolumn
Xuejuan Zhang

False Positive Control for Genome-wide ChIP-chip Tiling Arrays
Yu Zhang

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