2011 IEEE International Conference on Systems Biology (ISB)
Zhuhai, China, September 2-4, 2011
Edited by: Luonan Chen, Xiang-Sun Zhang, Ling-Yun Wu, and Yong Wang
Copyright ©2011 by the Institute of Electrical and Electronics Engineers, Inc. All rights reserved.
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IEEE Catalog Number CFP11ISB-USB
ISBN 978-1-4577-1665-2
Robustness of CDK2 in Triggering Cellular Senescence Based on Probability of DNA-Damaged Cells Passing G1/S Checkpoint
Hong Ling, Sandhya Samarasinghe, Don Kulasiri
The Role of GSH Depletion in Resveratrol Induced HeLa Cell Apoptosis
Bo Zhang, Xiaoqin Wang, Hanying Chen, Qiusheng Zheng, Xin Li
Inferring Gene Regulatory Networks from Multiple Time Course Gene Expression Datasets
Bo-Lin Chen, Li-Zhi Liu, Fang-Xiang Wu
Predicting Functional Impact of Single Amino Acid Polymorphisms by Integrating Sequence and Structural Features
Mingjun Wang, Hong-Bin Shen, Tatsuya Akutsu, Jiangning Song
Kinetics of Muller's Ratchet from Adaptive Landscape Viewpoint
Shuyun Jiao, Yanbo Wang, Bo Yuan, Ping Ao
NRProF: Neural Response Based Protein Function Prediction Algorithm
Hari Krishna Yalamanchili, Junwen Wang, Quan-Wu Xiao
Pathogenesis of Axial Spondyloarthropathy in a Network Perspective
Jing Zhao, Ting-Hong Yang
Copy Number Detection Using Self-Weighted Least Square Regression
Xiaorong Yang, Ke-Ang Fu
Detecting Protein Complexes in PPI Networks: The Roles of Interactions
Xiaoke Ma, Lin Gao
Characterizing Criticality of Proteins by System Dynamics
Ru-Dong Li, Lei Liu
Extrinsic vs. Intrinsic Noises in Phage Lambda Genetic Switch
Wei Tian, Hongyuan Zhu, Xue Lei, Ping Ao
An Edge Based Core-Attachment Method to Detect Protein Complexes in PPI Networks
Yu Wang, Lin Gao, Zhe Chen
Evaluating the Denoising Techniques in Protein-Protein Interaction Prediction
Yong-Cui Wang, Xian-Wen Ren, Chun-Hua Zhang
RNADAP --- RNA-Seq Data Annotation Pipeline
Zunming Liu, Jingfa Xiao, Jiayan Wu, Jun Yu
Application of an Improved K-means Algorithm in Gene Expression Data Analysis
Qian Ren, Xinjian Zhuo
Detecting B-cell Lymphomas Dysregulation Modules Based on Molecular Interaction Network
Fu-Yan Hu, Xing-Ming Zhao
The Calibration Method Research for Biology Image
Zilong Liu, Wenli Liu, Rui Chen, Yu Wang, Ningfang Liao
Time Delay-Accelerated Transition of Gene Switch and -Enhanced Stochastic Resonance in a Bistable Gene Regulatory Model
Canjun Wang, Ming Yi, Keli Yang
Phenotype-Difference Oriented Identification of Molecular Functions for Diabetes Progression in Goto-Kakizaki Rat
Guanying Piao, Bangguo Qian, Shigeru Saito, Zhi-Ping Liu, Tao Zeng, Yong Wang, Jiarui Wu, Huarong Zhou, Luonan Chen, Katsuhisa Horimoto
Identifying Positional Homologs as Bidirectional Best Hits of Sequence and Gene Context Similarity
Melvin Zhang, Hon Wai Leong
Comparative Genomics Revealed a Novel DNA-Binding Regulatory Protein Involved in Homologous Recombination in Bacteria
Yang Gao, Yan Zhang
Protein Interaction Prediction for Mouse PDZ Domains Using Dipeptide Composition Features
Songyot Nakariyakul, Zhi-Ping Liu, Luonan Chen
Antiallodynic Effects of Microglial Interleukin-1$\beta $ Inhibition in the Spinal Cord
Yu-Xia Chu, Min Wang, Ming Yao, Xin-Mei Zhou, Xia-Ying Du, Xiao Wan, Zi-Fang Li, Meng-Jia Zhu, Xiao Chen
Comparative Genomics Revealed a Novel DNA-Binding Regulatory Protein Involved in Homologous Recombination in Bacteria
Yu-Shu Liu, Chung-Hsaio Chao, Hao-Teng Chang, Yong Wang, Margaret Dah-Tsyr Chang, Tun-Wen Pai
A General Shape Equation for Local Regular Structure of Biomolecular Chains
Liu Hong, Jinzhi Lei
Genomic Signatures for Metagenomic Data Analysis: Exploiting the Reverse Complementarity of Tetranucleotides
Fabio Gori, Dimitrios Mavroedis, Mike S.M. Jetten, Elena Marchiori
Bifurcation of an Epidemic Model with Sub-optimal Immunity and Saturated Recovery Rate
Chang Phang, Yong-Hong Wu
WinBEST-KIT for Analyzing Multilayer and Multicellular Systems
Tatsuya Sekiguchi, Masahiro Okamoto
A Modified Newton's Method for Inverse Problem of Probabilistic Boolean Networks with Gene Perturbations
Wen Li, Wai-Ki Ching, Lu-Bin Cui
Parallel-META: A High-Performance Computational Pipeline for Metagenomic Data Analysis
Xiaoquan Su, Jian Xu, Kang Ning
Floral Structure and Pollination in Relation to Fruit Set in Cynanchum otophyllum Schneid
Ding-Kang Wang, Shu-Hua Zhai, Bin Wang, Gui-Fang Sun
A Similarity Network Approach for Analyzing the Marine Microbial Diversity
Wei Chen, Yongmei Cheng, Shaowu Zhang, Liyang Hao, Peng Ding
Synchronization Feature of Coupled Cell-Cycle Oscillators
Wei Zhang, Xiufen Zou
Identification of Master Regulator Candidates for Diabetes Progression in Goto-Kakizaki Rat by a Computational Procedure
Shigeru Saito, Yidan Sun, Zhi-Ping Liu, Yong Wang, Xiao Han, Huarong Zhou, Luonan Chen, Katsuhisa Horimoto
MicroRNA Expression Analysis Reveals Significant Biological Pathways in Human Prostate Cancer
Yifei Tang, Jiajia Chen, Cheng Luo, Antti Kaipia, Bairong Shen
The Preservation of Bidirectional Promoter Architecture in Eukaryotes --- Functional or Co-Regulation Constraint?
Chao Xu, Jiajia Chen, Bairong Shen
Predicting MicroRNA Targets by Integrating Sequence and Expression Data in Cancer
Naifang Su, Yufu Wang, Minping Qian, Minghua Deng
Context-Specific miRNA Regulation Network Predicts Cancer Prognosis
Xionghui Zhou, Juan Liu, Changning Liu, Simon Rayner, Fengji Liang, Jingfang Ju, Yinghui Li, Shanguang Chen, Jianghui Xiong
Dynamics of HBV Model with Intermittent Antiviral Therapy
Ben-gong Zhang, Luonan Chen,Kazuyuki Aihara
A Linear Programming Model for Identifying Non-Redundant Biomarkers Based on Gene Expression Profiles
Xianwen Ren, Yong Wang, Luonan Chen, Xiang-Sun Zhang
A Quantitative Framework of Transcriptional Dynamics by Integrating Multiple Sources of Knowledge
Shu-Qiang Wang, Han-Xiong Li
Stability Analysis and Simulation of an Anti-HBV Therapy Mathematical Model with Time-delay Immune Response
Yongmei Su, Lequan Min
Systematic Reconstruction of Splicing Regulatory Modules by Integrating Many RNA-Seq Datasets
Chao Dai, Wenyuan Li, Juan Liu, Xianghong Jasmine Zhou
Finding Optimal Control Policy by Using Dynamic Programming in Conjunction with State Reduction
Xi Chen, Wai-Ki Ching
Gradient-Based High Precision Alignment of Cryo-Electron Subtomograms
Min Xu and Frank Alber
Discriminative Random Field Approach to Prediction of Protein Residue Contacts
Mayumi Kamada, Morihiro Hayashida, Jiangning Song, Tatsuya Akutsu
Dynamic Remodeling of Context-Specific miRNAs Regulation Networks Facilitate in silico Cancer Drug Screening
Lida Zhu, Fengji Liang, Juan Liu, Simon Rayner, Yinghui Li, Shanguang Chen, Jianghui Xiong
Heavy Metal Tolerance of an Antarctic Bacterial Strain O5 and Its Antioxidant Enzyme Activity Changes Induced by Cu$^{2+}$
Min Wang, Guangfeng Kan, Cuijuan Shi, Qiuju Xie, Yingying Huang, Zhenhuan Lei
Evolutionary Sequence Divergence Predicts Protein Sub-Cellular Localization Signals
Yoshinori Fukasawa, Ross KK Leung, Stephen KW Tsui, Paul Horton
Global Analysis of a General HBV Infection Model
Xinjian Zhuo
Identifying Biomarkers for Acupuncture Treatment via an Optimization Model
Yong Wang, Qiao-Feng Wu, Chen Chen, Xian-Zhong Yan, Shu-Guang Yu, Xiang-Sun Zhang, Fan-Rong Liang
Parallel Metabolomics of Urine and Serum Revealed Systematic Alteration Associated with Renal Disease
Xianfu Gao, Wanjia Chen, Rongxia Li, Minfeng Wang, Chunlei Chen, Rong Zeng, Yueyi Deng
Neural Fate Decisions Mediated by Notch-Delta Signaling
Ruiqi Wang, Kaihui Liu, Luonan Chen
A Dynamical Method to Extract Communities Induced by Low or Middle-degree Nodes
Junhua Zhang, Zhi-Ping Liu, Xiang-Sun Zhang, Luonan Chen
Cross-Species Identification of Hydroxylation Sites for ARD and FIH Interaction
Ying-Tsang Lo, Tsan-Huang Shih, Han-Jia Lin, Tun-Wen Pai, Margaret Dah-Tsyr Chang
Analyzing Time-Course Gene Expression Data Using Profile-State Hidden Markov Model
Qiang Huang, Ling-Yun Wu, Ji-Bin Qu, Xiang-Sun Zhang
Intrinsic Noise Induced State Transition in Coupled Positive and Negative Feedback Genetic Circuit
Pei Wang, Jinhu L\"{u}, Yuhuan Zhang, Maciej J. Ogorzalek
The Early Warning Signal of Complex Diseases Based on the Network Transition Entropy
Rui Liu, Luonan Chen, Kazuyuki Aihara
Identifying Temporal Trace of Biological Process During Phase Transition
Tao Zeng, Luonan Chen
Inferring Domain-Domain Interactions Using an Extended Parsimony Model
Chen Chen, Jun-Fei Zhao, Qiang Huang, Rui-Sheng Wang, Xiang-Sun Zhang
An Identification of Secondary Structure Conserved Elements in Mammalian Syntenic Regions
Toutai Mituyama
Exploring Drug Combinations in a Drug-Cocktail Network
Ke-Jia Xu, Fu-Yan Hu, Jiangning Song, Xing-Ming Zhao
Detecting Coherent Local Patterns from Time Series Gene Expression Data by a Temporal Biclustering Method
Ji-Bin Qu, Xiang-Sun Zhang, Ling-Yun Wu, Yong Wang, Luonan Chen