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Lecture Notes in Operations Research
13 Series Editors: Ding-Zhu Du and Xiang-Sun Zhang Computational Systems Biology
The Fourth International Conference on Computational Systems Biology (ISB2010) Edited by: Luonan Chen, Xiang-Sun Zhang, Bairong Shen, Ling-Yun Wu, and Yong Wang |
Plenary Sessions
Data Compression-Based Approaches to Analysis of Biological Networks
Tatsuya Akutsu
Random but Reliable: Properties of Spike Sequences of IP3-induced Ca2+ signaling
Martin Falcke
Computing probability landscape of stochastic networks through Discrete Chemical Master
Equation: Understanding Maintenance of Epigenetic State of Phage Lambda
Youfang Cao, Hsiao-Mei Lu, Jie Liang
Integrative Analysis of Heterogeneous Genomics Data
Xianghong Jasmine Zhou
Parallel Sessions
Three Faces of Metabolites: Pathways, Localizations and Network Positions
Jing Zhao, Petter Holme
A Mathematical Model of Fas Signaling
Induced Apoptosis
Chang Gu, Junjie Zhang, Yingyu Chen, Jinzhi Lei
Nonlinear Dynamic Analysis of an Entermorpha
prolifera Population Model
Ying Li
Computational Analysis of Protein Tyrosine
Nitration
ZhiSong He, Tao Huang, XiaoHe Shi, LeLe Hu, Lei Chen, Fang Liu, Kai Wang, TieQiao Wen, XiangYin Kong, Yudong Cai
Improving MSVM-RFE for Multiclass Gene Selection
Yan-Mei Zhao, Zhi-Xia Yang
A Network Target-based Approach for Evaluating Multicomponent Synergy
Shao Li, Ningbo Zhang, Bo Zhang
Functioning of the Brain
Martin Vlcek
An improved Kinetic Model for Acetone-Butanol-Ethanol Pathway of Clostridium acetobutylicum and Model-Based Perturbation Analysis
Ru-Dong Li, Yuan-Yuan Li, Ling-Yi Lu, Cong Ren, Yi-Xue Li, Lei Liu
A Measure for Sequence Similarity Based on Dual Nucleotides and Information Discrepancy
Zhen Wang, Jia-Wei Luo, Han-Qi Zhou, Fang Liu
Genome-wide Analysis of the Transcription
Factor Binding Preference of Human Bidirectional Promoters and Functional Annotation of the Related Gene Pairs
Bingchuan Liu, Jiajia Chen, Bairong Shen
Delay Discrete Dynamical Models for Genetic
Regulatory Networks
Hao Jiang, Wai-Ki Ching, Kiyoko F. Aoki-Kinoshita, DianJing Guo
Cancer Related Gene Identification via p-norm
Support Vector Machine
Jun-Yan Tan, Chun-Hua Zhang, Nai-Yang Deng
Transcriptional Regulatory Network Discovery
via Information Mining Approach in Rett Syndromes Study
Xiaorong Yang, Xianwen Ren, Xiaobo Zhou
SVM-based Method for Predicting Enzyme Function in a Hierarchical Context
Yong-Cui Wang, Zhi-Xia Yang, Nai-Yang Deng
Modeling the Dynamics of the XlnR Regulon
Network in Aspergillus niger
Jimmy Omony, Leo H. de Graaff, Gerrit van Straten,
Anton J.B. van Boxtel
Property of Multiple Equilibria for SSI
Metabolic Module
Hong-Bo Lei, Ji-Feng Zhang
Identification of Disease Locus Using
Constrained Scaling Models
Yiu-Fai Lee, Michael K. Ng
Identifying Protein Binding Hot Spots by Using
Deeply Buried Atomic Contacts
Zhenhua Li, Jinyan Li
Cell Signaling Dynamics Analysis in
Leukemia with Switching Boolean Networks
Woochang Hwang, Doheon Lee
Cross-species Functional Conservation and in
silico Gene Replacement for HIF Pathways
Chia-Sheng Chuang, Chih-Chia Chen, Tun-Wen Pai,
Chin-Hua Hu, Hao-Teng Chang, Margaret Dah-Tsyr Chang
Adaptive Unscented Kalman Filter for
Estimation of Parameters in Kinetic Metabolic Models
Syed Murtuza Baker, Bjorn H. Junker
Effects of Multiple Probesets in Affymetrix
GeneChips on Identifying Differentially Expressed Genes in iPS Cells
Zhi-Ping Liu, Xiang-Sun Zhang
Significant Regulatory Networks from
Goto-Kakizaki Rat Liver Microarray Data during Diabetic Progression
Huarong Zhou, Shigeru Saito, Guanying Piao, Rongkuan Hu,
Jiguang Wang, Zhi-Ping Liu, Katsuhisa Horimoto
Mapping a Regulatory Network Between
Organisms
Rachita Sharma, Patricia A. Evans, Virendrakumar C. Bhavsar
NRWRH for Drug Target Prediction
Xing Chen, Gui-Ying Yan
On Construction of Sparse Probabilistic
Boolean Networks from a Prescribed Transition Probability Matrix
Lu-Bin Cui, Wen Li, Wai-Ki Ching
Uncover the Transient Transcriptional
Regulations by a Novel Sliding Window Correlation Strategy
Jiguang Wang, Yong Wang, Xianwen Ren, Wei Guo,
Luonan Chen
A Modified Entropy Approach for Construction
of Probabilistic Boolean Networks
Xi Chen, Limin Li, Wai-Ki Ching, Nam-Kiu Tsing
Self-induced Stochastic Resonance in
MicroRNA Regulation of a Cancer Network
Jianwei Shen, Luonan Chen, Kazuyuki Aihara
An Improvement Based on Feature Selection in
Enzyme Identification
Ji-Xiang Wei, Fang-Zhen Li, Sheng-Yuan Wang
MetaDBSite: a Meta Approach to Improve
Protein DNA-Binding Sites Prediction
JingNa Si, Zengming Zhang, Biaoyang Lin,
Michael Schroeder, Bingding Huang
Conditional Random Field Approach to
Prediction of Protein-Protein Interactions Using Mutual Information Between Domains
Morihiro Hayashida, Mayumi Kamada, Jiangning Song,
Tatsuya Akutsu
Predicting Cell Cycle Genes from E-MAP
Profiles by Integrating Multiple Types of Data
Wang Lin, Hou Lin, Minping Qian,
Fangting Li, Minghua Deng
Control of Directed Differentiation by
Parameter Perturbations
Xiao Chang, DengYu Liu, Zengrong Liu, Luonan Chen, Ruiqi Wang
Novel Global Network Scores to
Analyze Kinase Inhibitor Profiles
Jacques Colinge, Uwe Rix, Giulio Superti-Furga
Addition of Autotrophic Carbon Fixation
Pathways to Increase the Theoretical Heterotrophic Yield of Acetate
Shuo-Huan Hsu, Priyan R. Patkar, Venkat Venkatasubramanian, John A. Morgan
Constrained Subspace Clustering for Time
Series Gene Expression Data
Jibin Qu, Michael Ng, Luonan Chen
Drug Target Identification Based on Flux
Balance Analysis of Metabolic Networks
Zhenping Li, Rui-Sheng Wang, Xiang-Sun Zhang
The Topological Properties of Virus-Human
Protein Interaction Networks
Jinying Tan, Xiufen Zou
A Network Biology Approach to Understand
Combination of Drugs
Ke-Jia Xu, Jiangning Song, Xing-Ming Zhao
Network Flow Model Based Analysis of Mouse
Hepatocarcinogenesis
Yu-Qing Qiu, Xing-Ming Zhao, Zikai Wu,
Chaochao Wu, Rong Zeng, Luonan Chen
Stability Analysis of Nonlinear Hybrid System
in Microbial Fed-batch Culture
Caixia Gao, Jiuzai Feng
Impacts of Different Metabolite Measurement
Protocols on Estimating Parameters in Complex
Photosynthetic Carbon Metabolism Models
Wei Pan, John Fettig, Eric de Sturler, Xin-Guang Zhu
Potential Linkages Between the Inner and Outer
Cellular States of Human Induced Pluripotent Stem Cells
Shigeru Saito, Yasuko Onuma, Yuzuru Ito, Hiroaki Tateno,
Masashi Toyoda, Hidenori Akutsu, Koichiro Nishino,
Emi Chikazawa, Yoshihiro Fukawatase, Yoshitaka Miyagawa,
Hajime Okita, Nobutaka Kiyokawa, Yohichi Shimma,
Akihiro Umezawa, Jun Hirabayashi, Katsuhisa Horimoto,
Makoto Asashima