PRIB 2007: Singapore

Sequence Analysis

• Xu-Ning Tang, Zhi-Chao Lian, Zhi-Li Pei, Yanchun Liang:
  Automated Methods of Predicting the Function of Biological Sequences Using GO and Rough Set. 1-10
  
• Yan Lin Aung, Douglas L. Maskell, Timothy F. Oliver, Bertil Schmidt, William Bong:
  C-Based Design Methodology for FPGA Implementation of ClustalW MSA. 11-18
  
• Maria Stepanova, Feng Lin, Valerie C.-L. Lin:
  A Two-Phase ANN Method for Genome-Wide Detection of Hormone Response Elements. 19-29
  
• Casey S. Greene, Bill C. White, Jason H. Moore:
  An Expert Knowledge-Guided Mutation Operator for Genome-Wide Genetic Analysis Using Genetic Programming. 30-40
  
• Pratibha Mehta Luthra, Sandeep Kumar Barodia, Amresh Prakash, Ramraghubir:
  cDNA-Derived Amino Acid Sequence from Rat Brain A_2aR Possesses Conserved Motifs PMNYM of TM 5 Domain, Which May Be Involved in Dimerization of A_2aR. 41-50
  
• Xuegong Deng, Xuemei Deng, Ilkka Havukkala:
  Strong GC and AT Skew Correlation in Chicken Genome. 51-59
  
• Caroline Pearson, Susan J. Simmons, Karl Ricanek, Edward L. Boone:
  Comparative Analysis of a Hierarchical Bayesian Method for Quantitative Trait Loci Analysis for the Arabidopsis Thaliana. 60-70
  

Prediction of Protein Structure, Interaction and Localization

• Jianyu Shi, Shao-Wu Zhang, Quan Pan, Yanning Zhang:
  Using Decision Templates to Predict Subcellular Localization of Protein. 71-83
  
• Tamjidul Hoque, Madhu Chetty, Laurence S. Dooley:
  Generalized Schemata Theorem Incorporating Twin Removal for Protein Structure Prediction. 84-97
  
• Tongliang Zhang, Rong Wei, Yongsheng Ding:
  Using Fuzzy Support Vector Machine Network to Predict Low Homology Protein Structural Classes. 98-107
  
• Siddharth Singh, Krishnan Hajela, Ashwini Kumar Ramani:
  SVM-BetaPred: Prediction of Right-Handed ß-Helix Fold from Protein Sequence Using SVM. 108-119
  
• Y.-h. Taguchi, M. Michael Gromiha:
  Protein Fold Recognition Based Upon the Amino Acid Occurrence. 120-131
  
• Yu-Yen Ou, Shu-An Chen, Chung-Lu Shao, Hao-Geng Hung:
  Using Efficient RBF Network to Identify Interface Residues Based on PSSM Profiles and Biochemical Properties. 132-141
  
• Shandar Ahmad:
  Dynamic Outlier Exclusion Training Algorithm for Sequence Based Predictions in Proteins Using Neural Network. 142-147
  
• M. Michael Gromiha:
  Bioinformatics on beta-Barrel Membrane Proteins: Sequence and Structural Analysis, Discrimination and Prediction. 148-157
  
• Said Hassan Ahmed, Tor Flå:
  Estimation of Evolutionary Average Hydrophobicity Profile from a Family of Protein Sequences. 158-165
  

Gene Expression Analysis

• Yuriy Orlov, Jiangtao Zhou, Joanne Chen, Atif Shahab, Vladimir Kuznetsov:
  APMA Database for Affymetrix Target Sequences Mapping, Quality Assessment and Expression Data Mining. 166-177
  
• Ángela Blanco, Manuel Martín-Merino, Javier De Las Rivas:
  Ensemble of Dissimilarity Based Classifiers for Cancerous Samples Classification. 178-188
  
• Gregor Stiglic, Nawaz Khan, Mateja Verlic, Peter Kokol:
  Gene Expression Analysis of Leukemia Samples Using Visual Interpretation of Small Ensembles: A Case Study. 189-197
  
• Deyu Zhou, Yulan He, Chee Keong Kwoh, Hao Wang:
  Ant-MST: An Ant-Based Minimum Spanning Tree for Gene Expression Data Clustering. 198-205
  
• Kenneth McGarry, Mohammad Sarfraz, John MacIntyre:
  Integrating Gene Expression Data from Microarrays Using the Self-Organising Map and the Gene Ontology. 206-217
  
• Li Teng, Laiwan Chan:
  Order Preserving Clustering by Finding Frequent Orders in Gene Expression Data. 218-229
  
• Kezhi Mao, Wenyin Tang:
  Correlation-Based Relevancy and Redundancy Measures for Efficient Gene Selection. 230-241
  
• Piyushkumar A. Mundra, Jagath C. Rajapakse:
  SVM-RFE with Relevancy and Redundancy Criteria for Gene Selection. 242-252
  
• Merja Oja:
  In Silico Expression Profiles of Human Endogenous Retroviruses. 253-263
  

Pathway Analysis

• Ramesh Ram, Madhu Chetty:
  A Framework for Path Analysis in Gene Regulatory Networks. 264-273
  
• Muhammad Shoaib B. Sehgal, Iqbal Gondal, Laurence Dooley, Ross L. Coppel, Kiah Mok Goh:
  Transcriptional Gene Regulatory Network Reconstruction Through Cross Platform Gene Network Fusion. 274-285
  
• Maurice H. T. Ling, Christophe Lefèvre, Kevin R. Nicholas, Feng Lin:
  Reconstruction of Protein-Protein Interaction Pathways by Mining Subject-Verb-Objects Intermediates. 286-299
  
• Iti Chaturvedi, Meena K. Sakharkar, Jagath C. Rajapakse:
  Validation of Gene Regulatory Networks from Protein-Protein Interaction Data: Application to Cell-Cycle Regulation. 300-310
  

Medical Informatics

• Andrzej Zolnierek, Marek Kurzynski:
  Rough Sets and Fuzzy Sets Theory Applied to the Sequential Medical Diagnosis. 311-322
  
• Deepak Perumal, Chu Sing Lim, Meena K. Sakharkar:
  In silico Identification of Putative Drug Targets in Pseudomonas aeruginosa Through Metabolic Pathway Analysis. 323-336
  
• Liwen You, Ping Zhang, Mikael Bodén, Vladimir Brusic:
  Understanding Prediction Systems for HLA-Binding Peptides and T-Cell Epitope Identification. 337-348
  
• Menaka Rajapakse, Lin Feng:
  Predicting Binding Peptides with Simultaneous Optimization of Entropy and Evolutionary Distance. 349-355
  

Bioimaging

• Alexandre Dufour, JooHyun Lee, Nicole Vincent, Regis Grailhe, Auguste Genovesio:
  3D Automated Nuclear Morphometric Analysis Using Active Meshes. 356-367
  
• Arun Kumar, Jagath C. Rajapakse:
  Time-Frequency Method Based Activation Detection in Functional MRI Time-Series. 368-377
  
• Omid Dehzangi, Mansoor Zolghadri Jahromi, Shahram Taheri:
  High Performance Classification of Two Imagery Tasks in the Cue-Based Brain Computer Interface. 378-390
  
• Bo Zheng, Jagath C. Rajapakse:
  Human Brain Anatomical Connectivity Analysis Using Sequential Sampling and Resampling. 391-400
  
• Tianxia Gong, Ruizhe Liu, Chew Lim Tan, Neda Farzad, Cheng Kiang Lee, Boon Chuan Pang, Qi Tian, Suisheng Tang, Zhuo Zhang:
  Classification of CT Brain Images of Head Trauma. 401-408