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4th BIBE 2004: Taichung, Taiwan
- 4th IEEE International Symposium on BioInformatics and BioEngineering (BIBE 2004), 19-21 March 2004, Taichung, Taiwan. IEEE Computer Society 2004, ISBN 0-7695-2173-8
Keynote Speech
- Wen-Hwa Lee:
Tumor Suppressor Gene Networks as Molecular Targets for Developing New Cancer Treatments. 1-4
Invited Speech
- Zhengchang Su, PhuongAn Dam, Victor Olman, Ying Xu:
Computational Inference of Transcription Regulation and Response Networks in Synechococcus sp. WH8102. 5-8
Bioengineering
- Andreas Schmid:
Retionomorphic Information Processing for Electrical Epi-Retinal Vision Implant Stimulation. 9-16 - Yung-Kang Chen, Hsien-Tsai Wu, Chih-Kai Chi, Wei-Chuan Tsai, Ju-Yi Chen, Ming-Chun Wang:
A New Dual Channel Pulse Wave Velocity Measurement System. 17-21 - Daniele Masotti, Elisa Ficarra
, Enrico Macii, Luca Benini
Techniques for Enhancing Computation of DNA Curvature Molecules. 22-29 - Gloria Y. Yang, Vasudev J. Bailey, Gisela Lin
Design of Microfabricated Strain Gauge Array to Monitor Bone Deformation In Vitro and In Vivo. 30-37 - Weili Zheng, Aamer Aziz, Ihar Volkov, Xin Ma, F. S. Chau, Marcelo H. Ang Jr.
Towards Automating an Interventional Radiology Procedure. 38-46
Data Integration and Protein Folding
- Ane Tröger, Alvaro A. A. Fernandes:
A Language for Comprehensively Supporting the In Vitro Experimental Process In Silico. 47-56 - Pengyu Hong, Sheng Zhong, Wing Hung Wong:
Towards Ubiquitous Bio-Information Computing: Data Protocols, Middleware, and Web Services for Heterogeneous Biological Information Integration and Retrieval. 57-64 - Zina Ben-Miled, Lingma Lu, Malika Mahoui, Jessica Chen, Omran A. Bukhres, Ning Gao, Yue He:
A Service Discovery Approach in Support of Web Service Integration. 65-72 - Reiichiro Nakamichi, Seiya Imoto, Satoru Miyano:
Case-Control Study of Binary Disease Trait Considering Interactions between SNPs and Environmental Effects using Logistic Regression. 73-78 - Eunice E. Santos, Eugene Santos Jr.:
Reducing the Computational Load of Energy Evaluations for Protein Folding. 79-88
Invited Speech
- Wen-Lian Hsu, Jia-Ming Chang, Wen-Chi Chou, Jun-Bo Chen, Kuen-Pin Wu, Ting-Yi Sung, Chi-Fon Chang, Wen-Jin Wu, Tai-Huang Huang:
An Iterative Relaxation Technique for the NMR Backbone Assignment Problem. 89-92
Medical Image Processing I
- Qingmao Hu, Wieslaw Lucjan Nowinski
Knowledge-Driven Extraction of the Four Modified Talairach Cortical Landmarks (A, P, L, and R) from MR Neuroimages. 93-99 - Ruey-Feng Chang
Breast Ultrasound Image Classification Using Fractal Analysis. 100-107 - Louise Chuang, Jeng-Yang Hwang, Hen-Chang Chang, I-Chang Jou, Shiang-Bin Jong:
Quantitative Computer Image Analysis of Serum a-fetoprotein Rapid Gold Immunochromatographic Dipstick Assay. 108-114 - Wenlong Qian, Zujun Hou, Qingmao Hu, Aamer Aziz, Wieslaw Lucjan Nowinski:
Segmentation of the Sylvian Fissure in Brain Mr Images. 115-124
Parallel Processing and Primer Design
- Weng-Long Chang, Michael (Shan-Hui) Ho, Minyi Guo:
Fast Parallel Molecular Algorithms for DNA-based Computation: Factoring Integers. 125-133 - Damon Shing-Min Liu, Che-Hao Wu:
An Effective Approach for Constructing the Phylogenetic Tree on a Grid-Based Architecture. 134-141 - Shih-Nung Chen, Jeffrey J. P. Tsai, Chih-Wei Huang, Rong-Ming Chen, Raymond C. K. Lin:
Using Distributed Computing Platform to Solve High Computing and Huge Data Processing Problems in Bioinformatics. 142-148 - Kliger Kissinger F. Rocha, C. Medeiros, Meika I. Monteiro, Luiz Marcos Garcia Gonçalves
Design of Specie-Specific Primers for Virus Diagnosis in Plants with PCR. 149-158
Medical Image Processing II
- Chien-Chuan Ko, Jyh-Wei Jang:
Interactive Polyp Biopsy based on Automatic Segmentation of Virtual Colonoscopy. 159-166 - Yen-Yu Chen, Shen-Chuan Tai:
Embedded Medical Image Compression Using DCT Based Subband Decomposition and Modified SPIHT Data Organization. 167-174 - Adrian S. Barb, Chi-Ren Shyu, Yash Sethi:
Semantic Integration and Knowledge Exchange for Diagnostic Medical Image Databases. 175-182 - Tang-Kai Yin, Nan-Tsing Chiu:
Discrimination between Alzheimer's Dementia and Controls by Automated Analysis of Statistical Parametric Maps of {99m}Tc-HMPAO-SPECT Volumes. 183-190 - Rania Hussein, Frederic Rick McKenzie, Paul Schellhammer, Jose Diaz:
Quantitation of Extra-Capsular Prostate Tissue from Reconstructed Tissue Images. 191-198
Medical Informatics
- Marco Masseroli, Andrea Stella, Natalia Meani, Myriam Alcalay
GeneWebEx: Gene Annotation Web Extraction, Aggregation, and Updating from Web-Based Biomolecular Databanks. 199-206 - David Pérez-Rey, Victor Maojo, Miguel García-Remesal, Raúl Alonso-Calvo:
Biomedical Ontologies in Post-Genomic Information Systems. 207-214 - Ferran Sanz, Carlos Díaz, Fernando Martín-Sánchez
European Support to Biomedical Informatics Development: in Pursue of Genomic Medicine. 215-221 - Victoria López-Alonso, J. P. Sanchez, I. Liebana, Isabel Hermosilla
INBIOMED: a Platform for the Integration and Sharing of Genetic, Clinical and Epidemiological Data Oriented to Biomedical Research. 222-226 - Miguel García-Remesal, Victor Maojo, Holger Billhardt, José Crespo, Raúl Alonso-Calvo, David Pérez-Rey, Fernando Martin, A. Sousa:
ARMEDA II: Supporting Genomic Medicine through the Integration of Medical and Genetic Databases. 227-236
Banquet Speech
- Hiroshi Yamaguchi:
Accelerating Trans-disciplinary Research to a Knowledge-sharing Infrastracture. 237-240
Keynote Speech
- Eva Y.-H. P. Lee:
Protein Network in DNA Damage Response and Breast Carcinogenesis. 241-244
Invited Speech
- Wieslaw Lucjan Nowinski
Virtual Reality in Brain Intervention. 245-250
Gene Expression
- Xiaohua Hu:
Integration of Cluster Ensemble and Text Summarization for Gene Expression Analysis. 251-258 - Kevin Y. Yip
Identifying Projected Clusters from Gene Expression Profiles. 259-266 - Fang-Xiang Wu, Wen-Jun Zhang, Anthony J. Kusalik:
Model-Based Clustering with Genes Expression Dynamics for Time-Course Gene Expression Data. 267-274 - Sungroh Yoon, Christine Nardini
Enhanced pClustering and Its Applications to Gene Expression Data. 275-282 - Zonghong Zhang, Alvin Teo, Beng Chin Ooi, Kian-Lee Tan:
Mining Deterministic Biclusters in Gene Expression Data. 283-292
Transcriptome and Functional Genomics
- Hsun-Chang Chang, Po-Shun Yu, Tze-Wei Huang, Yaw-Ling Lin, Fang-Rong Hsu:
The Application of Alternative Splicing Graphs in Quantitative Analysis of Alternative Splicing Form from EST Database. 293-300 - Judith Zimmermann, Zsuzsanna Lipták
A Method for Evaluating the Quality of String Dissimilarity Measures and Clustering Algorithms for EST Clustering. 301-309 - Fang-Rong Hsu, Hwan-You Chang, Yaw-Ling Lin
Genome-Wide Alternative Splicing Events Detection through Analysis of Large Scale ESTs. 310-316 - Francisco Azuaje, Olivier Bodenreider:
Incorporating Ontology-Driven Similarity Knowledge into Functional Genomics: An Exploratory Study. 317-324 - Jorng-Tzong Horng, Kai-Chih Hu, Li-Cheng Wu, Hsien-Da Huang, Horn-Cheng Lai, Ton-Yuen Chu:
Identifying the Combination of Genetic Factors that Determine Susceptibility to Cervical Cancer. 325-332
Invited Speech
- Y.-W. Deng, C. H. Wei, Ueng-Cheng Yang:
Death Domain Resource: an Integrated Protein Domain Database. 333-336
Microarray Data Analysis
- Osman Abul
Markov Decision Processes Based Optimal Control Policies for Probabilistic Boolean Network. 337-344 - Hsieh-Hui Yu, Vincent Shin-Mu Tseng, Jiin-Haur Chuang:
A Multi-Information based Gene Scoring Model with Applications on Analysis of Hepatocellular Carcinoma. 345-350 - Karuturi R. Krishna Murthy, Vinsensius B. Vega:
Friendly Neighbors Method for Unsupervised Determination of Gene Significance in Time-course Microarray Data. 351-357 - Han-Yu Chuang, Hongfang Liu, Stuart M. Brown, Cameron McMunn-Coffran, Cheng-Yan Kao, D. Frank Hsu:
Identifying Significant Genes from Microarray Data. 358-365 - Selnur Erdal, Ozgur Ozturk, David L. Armbruster, Hakan Ferhatosmanoglu, William C. Ray:
A Time Series Analysis of Microarray Data. 366-378
Homology Search
- Kwok Pui Choi, Fanfan Zeng, Louxin Zhang:
Good Spaced Seeds For Homology Search. 379-386 - Gregory Kucherov
Estimating Seed Sensitivity on Homogeneous Alignments. 387-394 - Hsiao Ping Lee, Yin-Te Tsai, Ching Hua Shih, Tzu Fang Sheu, Chuan Yi Tang:
An IDC-based Algorithm for Efficient Homology Filtration with Guaranteed Seriate Coverage. 395-402 - S. Alireza Aghili, Ozgur D. Sahin, Divyakant Agrawal, Amr El Abbadi:
Efficient Filtration of Sequence Similarity Search Through Singular Value Decomposition. 403-410 - I-Hsuan Yang, Sheng-Ho Wang, Yang-Ho Chen, Pao-Hsian Huang, Liang Ye, Xiaoqiu Huang, Kun-Mao Chao:
Efficient Methods for Generating Optimal Single and Multiple Spaced Seeds. 411-418
Proteomics
- Anand Kumar, Barry Smith
Towards a Proteomics Meta-Classification. 419-426 - Darby Tien-Hao Chang, Chien-Yu Chen, Yen-Jen Oyang, Hsueh-Fen Juan, Hsuan-Cheng Huang:
An Efficient Mechanism for Prediction of Protein-Ligand Interactions Based on Analysis of Protein Tertiary Substructures. 427-433 - Dong-Soo Han, Hong-Soog Kim, Woo-Hyuk Jang, Sung-Doke Lee:
Domain Combination Based Protein-Protein Interaction Possibility Ranking Method. 434-441 - Saravanan Dayalan, Savitri Bevinakoppa:
Dihedral Angle Database Based on Disulfide Bonds. 442-450
Sequence Analysis
- Paul Hsueh-Min Chang, Von-Wun Soo, Tai-Yu Chen, Wei-Shen Lai, Shiun-Cheng Su, Yu-Ling Huang:
Automating the Determination of Open Reading Frames in Genomic Sequences Using the Web Service Techniques -- A Case Study using SARS Coronavirus. 451-458 - Falcon F. M. Liu, Jeffrey J. P. Tsai, Rong-Ming Chen, S. N. Chen, S. H. Shih:
FMGA: Finding Motifs by Genetic Algorithm. 459-466 - Scott Mann, Yi-Ping Phoebe Chen
A Computational Framework for Nucleic Acid Sub-Sequence Identification. 467-474 - Chia-Hung Chang, Han-Yu Chuang, Yi-Hung Chiang, Chien-Shun Chiou, Hsueh-I Lu, Cheng-Yan Kao:
Automatically Predicting Possible Loci of Variable Number of Tandem Repeats. 475-482 - Xiaoan Dong, Sam Yuan Sung, Wing-Kin Sung, Chew Lim Tan:
Constraint Based Method for Finding Motifs in DNA Sequences. 483-492
Keynote Speech
- Richard C. T. Lee:
Application of Visual Display Techniques to Solve Some Biological Problems. 493-496
Invited Speech
- Atsushi Kitazawa, Masayoshi Yoshimura:
SemanticObjects and Biomedical Informatics. 497-502
Structural Biology
- Elke Moritz, Jörg Meyer:
Interactive 3D Protein Structure Visualization Using Virtual Reality. 503-507 - Zeyar Aung, Kian-Lee Tan:
Automatic Protein Structure Classification through Structural Fingerprinting. 508-515 - In-Yee Lee, Ta-tsen Soong, Jan-Ming Ho, Ming-Jing Hwang:
Derivation and Analysis of Fragment Libraries of Protein Structures. 516-521 - Pin-Hao Chi, Grant J. Scott, Chi-Ren Shyu:
A Fast Protein Structure Retrieval System Using Image-Based Distance Matrices and Multidimensional Index. 522-532
Algorithms
- Chuan-Min Lee, Ling-Ju Hung, Maw-Shang Chang, Chuan Yi Tang:
An Improved Algorithm for the Maximum Agreement Subtree Problem. 533-536 - Tatsuya Akutsu
Protein Threading with Profiles and Constraints. 537-544 - Ho-Leung Chan, Tak Wah Lam
A Mutation-Sensitive Approach for Locating Conserved Gene Pairs between Related Species. 545-552 - M. C. Chen, Richard C. T. Lee:
Sorting by Transpositions Based on the First Increasing Substring Concept. 553-560
Protein-Protein Interactions
- Ka-Lok Ng, Chien-Hung Huang:
A Cross-species Study of the Protein-protein Interaction Networks via the Random Graph Approach. 561-567 - Soon-Heng Tan, Wing-Kin Sung, See-Kiong Ng:
Discovering Novel Interacting Motif Pairs from Large Protein-Protein Interaction Datasets. 568-575 - Shinsuke Dohkan, Asako Koike, Toshihisa Takagi:
Prediction of Protein-Protein Interactions Using Support Vector Machines. 576-586
Algorithms and Intelligent Systems
- Gina Cooper, Michael L. Raymer, Travis E. Doom, Dan E. Krane, Natsuhiko Futamura:
Indexing Genomic Databases. 587-591 - Jijun Tang, Bernard M. E. Moret, Liying Cui, Claude W. dePamphilis:
Phylogenetic Reconstruction from Arbitrary Gene-Order Data. 592-599 - Fei Xie, Phillip C.-Y. Sheu, Arthur Lander, Vittorio Cristini:
Semantic Analysis and Synthesis of Complex Biological Systems. 600-610
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