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ORCID9th BIBE 2009: Taichung, Taiwan, ROC
- Jeffrey J. P. Tsai, Phillip C.-Y. Sheu, Han C. W. Hsiao:
Ninth IEEE International Conference on Bioinformatics and Bioengineering, BIBE 2009, June 22-24, 2009, Taichung, Taiwan. IEEE Computer Society 2009, ISBN 978-0-7695-3656-9
Regular Papers
Algorithms, Modeling and Simulation of Bio-Sets (I)
- Bernard Chen, Sinan Kockara:
Mining Positional Association Super-Rules on Fixed-Size Protein Sequence Motifs. 1-8 - Ikno Kim, Junzo Watada, Jui-Yu Wu, Yu-Yi Chu:
A Novel Biological Computation Method for Deriving and Resolving Discernibility Relations. 9-14 - Min Su Lee, Je-Keun Rhee, Byoung-Hee Kim, Byoung-Tak Zhang:
AESNB: Active Example Selection with Naive Bayes Classifier for Learning from Imbalanced Biomedical Data. 15-21 - Yi-Ming Sun, Wei-Li Liao, Hsien-Da Huang, Baw-Jhiune Liu, Cheng-Wei Chang, Jorng-Tzong Horng, Li-Ching Wu:
A Human DNA Methylation Site Predictor Based on SVM. 22-29
Bio-Imaging
- Natsumi Abe, Jun Sese:
Constructing Yeast Phenotypic Gene Network Using Morphological Inclusion Relations. 30-37 - Jonghyun Park, Wanhyun Cho, Soon-Young Park, Junsik Lim, Soo-Hyung Kim, Gueesang Lee:
A Generic Framework of Integrating Segmentation and Registration. 38-44 - Tansel Halic, Sinan Kockara, Coskun Bayrak, Richard Rowe, Bernard Chen:
Soft Tissue Deformation and Optimized Data Structures for Mass Spring Methods. 45-52
Biomedical Image Analysis and Biomaterials
- DongHo Hong, Wallapak Tavanapong, Johnny Wong, Jung-Hwan Oh, Piet C. de Groen:
3D Reconstruction of Colon Segments from Colonoscopy Images. 53-60 - Chii-Jen Chen
, Ruey-Feng Chang, Dar-Ren Chen:
Automatic Tumor Diagnosis for Breast Ultrasound Using 3D Sub-volume Registration. 61-68 - Hussain Fatakdawala, Ajay Basavanhally, Jun Xu, Gyan Bhanot, Shridar Ganesan, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
Expectation Maximization driven Geodesic Active Contour with Overlap Resolution (EMaGACOR): Application to Lymphocyte Segmentation on Breast Cancer Histopathology. 69-76 - Chao-Chin Chung, Tzou-Chi Huang, Ho-Hsien Chen:
The Optimization of Monascus Fermentation Process for Pigments Increment and Citrinin Reduction. 77-83
Gene Expression Analysis
- Xuan Vinh Nguyen, Julien Epps:
A Novel Approach for Automatic Number of Clusters Detection in Microarray Data Based on Consensus Clustering. 84-91 - Yinyin Yuan, Chang-Tsun Li:
Inferring Causal Relations from Multivariate Time Series: A Fast Method for Large-Scale Gene Expression Data. 92-99 - Li-Yeh Chuang, Kuo-Chuan Wu, Cheng-Hong Yang:
A Hybrid Feature Selection Method Using Gene Expression Data. 100-106 - Marco Tagliasacchi, Marco Masseroli:
Anomaly-free Prediction of Gene Ontology Annotations Using Bayesian Networks. 107-114
Identification and Classification of Genes
- Hasan M. Jamil, J. Jesmin:
Online Discovery and Refinement of Novel Genes Using GeneScope. 115-122 - Yongjin Li, Jagdish Chandra Patra, Jiabao Sun:
A New Method to Combine Heterogeneous Data Sources for Candidate Gene Prioritization. 123-129 - Ritesh Krishna, Chang-Tsun Li, Vicky Buchanan-Wollaston:
Interaction Based Functional Clustering of Genomic Data. 130-137 - Victor C. Liang, Vincent T. Y. Ng:
Alternative Feature Mapping for Heterogeneous Gene Data Classification. 138-145
Protein Structure Prediction and Molecular Simulation
- Qiwen Dong, Xin Geng, Shuigeng Zhou, Jihong Guan:
Empirical Probability Functions Derived from Dihedral Angles for Protein Structure Prediction. 146-152 - Yu-Feng Huang, Chia-Jui Yang, Yi-Wei Yang, Chien-Kang Huang:
Spatial Encoding Scheme for Protein Supporting Structure Discovery. 153-160 - Rao M. Kotamarti, Douglas W. Raiford, Michael L. Raymer, Margaret H. Dunham:
A Data Mining Approach to Predicting Phylum for Microbial Organisms Using Genome-Wide Sequence Data. 161-167 - Jieyue He, Robert W. Harrison, Phang C. Tai, Yi Pan:
Tri-Cluster-Tri-Scheme-Training: Exploiting Unlabeled Data for Transmembrane Segments Prediction. 168-175
Structural and Functional Analysis
- Chan-Shuo Wu, Guan-Shieng Huang:
A Practical Edit-Distance Model for RNA Secondary-Structure Comparison. 176-183 - Peter Clote, Evangelos Kranakis, Danny Krizanc:
Asymptotics of Canonical RNA Secondary Structures. 184-191 - Atthawut Chanthaphan, Santitham Prom-on, Asawin Meechai, Jonathan Hoyin Chan:
Identifying Functional Modules Using MST-Based Weighted Gene Co-Expression Networks. 192-199 - Changyong Yu, Guoren Wang, Yuhai Zhao, Keming Mao, Junjie Wu, Wendan Zhai:
Generating Peptide Sequence Tags for Peptide Identification via Tandem Mass Spectrometry. 200-207
Systems Biology
- Darby Tien-Hao Chang, Jung-Hsin Lin, Chih-Hung Hsieh, Yen-Jen Oyang:
On the Design of Optimization Algorithms for Prediction of Molecular Interactions. 208-215 - Jyh-Jong Tsay, Bo-Liang Wu, Chien-Wen Chen:
Data Matching for Physical Integration of Biochemical Pathway Databases. 216-220 - Carla Claudia da Rocha Rego Monteiro, Kátia Silva Guimaraes:
Logistic Biclustering Models for Protein Network Inference. 221-227 - Peng-Gang Sun, Lin Gao:
Algorithms Based on Density and Shared Neighbors for Functional Modules Identification in PPI Networks. 228-235
Short Papers
Algorithms, Modeling and Simulation of Bio-Sets (II)
- Vincent Rodin, Gabriel Querrec, Pascal Ballet, François-Regis Bataille, Gireg Desmeulles, Jean François Abgrall, Jacques Tisseau:
Multi-Agents System to Model Cell Signalling by Using Fuzzy Cognitive Maps. Application to Computer Simulation of Multiple Myeloma. 236-241 - Cheng-Hong Yang, Yu-Huei Cheng, Li-Yeh Chuang, Hsueh-Wei Chang:
Genetic Algorithm for the Design of Confronting Two-Pair Primers. 242-247 - Vamsi Kundeti, Sanguthevar Rajasekaran:
On the Hardness of the Border Length Minimization Problem. 248-253 - Sung-Huai Hsieh, Sheau-Ling Hsieh, Chia-Ping Shen, Wei-Hsin Chen, Po-Hsun Cheng, Kai-Ping Hsu, Chi-Huang Chen, Feipei Lai:
Web Services Based Bio-signal System Leveraging Support Vector Machines. 254-259 - Tzu-Hao Chang, Li-Ching Wu, Chi-Ta Yeh, Cheng-Wei Chang, Baw-Jhiune Liu, Hsien-Da Huang, Jorng-Tzong Horng:
RiboSW . 260-265 - Myungjin Moon, Jaegyoon Ahn, Youngmi Yoon, Chihyun Park, Sanghyun Park, Jeehee Yoon:
A Computational Approach to Detect CNVs Using High-throughput Sequencing. 266-271
Algorithms, Modeling and Simulation of Bio-Sets (III)
- Mei-Li You, Hsiao-Ying Chen, Shu-Peng Liu, Kun-Li Wen:
Applied GM(0, N) Model in the Study of Influence Factor in Preterm Neonates. 272-277 - Chih-Chuan Chen, Chao-Chin Hsu, Yi-Chung Cheng, Sheng-Tun Li:
Knowledge Discovery on In Vitro Fertilization Clinical Data Using Particle Swarm Optimization. 278-283 - Po-Yuan Chen, Wei-Tse Hsu, Mien-De Jhuo, Tzu-Hurng Cheng:
Exploring the Receptor-Based Virtual Screening Study of the Aromatic Substituents for the Hepatitis C Virus NS5B Polymerase by Docking and Scoring. 284-289 - Shahriyar Hossain, Cherie Southwood, Hasan M. Jamil, Alexander Gow:
ArrayQ: Querying Microarray Expressions for Relevant Pathways. 290-294 - Gabriele Giarratana, Marco Pizzera, Marco Masseroli, Enzo Medico, Pier Luca Lanzi:
Data Mining Techniques for the Identification of Genes with Expression Levels Related to Breast Cancer Prognosis. 295-300 - Dariusz Mrozek, Bozena Malysiak-Mrozek, Stanislaw Kozielski, Andrzej Swierniak:
The Energy Distribution Data Bank: Collecting Energy Features of Protein Molecular Structures. 301-306 - Wen-Tsai Sung:
Efficiency Enhancement of Protein Folding for Complete Molecular Simulation via Hardware Computing. 307-312
Biomedical Image Processing and Analysis
- Kai-Shung Lin, Chia-Ling Tsai, Michal Sofka, Chih-Hsiangng Tsai, Shih-Jen Chen, Wei-Yang Lin:
Vascular Tree Construction with Anatomical Realism for Retinal Images. 313-318 - Nima Hemmati, Mohammad Djavad Abolhassani:
Simulation of Ultrasound Propagation in Cancellous Bone by Solving Elastic Wave Equation Using Finite Difference Time Domain Method. 319-323 - Yaw-Jiunn Chiou, Hsian-Min Chen, Jyh Wen Chai, Clayton Chi-Chang Chen, Yen Chieh Ouyang, Wu-Chung Su, Ching-Wen Yang, San-Kan Lee, Chein-I Chang:
Brain Tissue Classification Using Independent Vector Analysis (IVA) for Magnetic Resonance Image. 324-329 - Gaixia Xu, Junle Qu, Stefan Jäger, Qingfeng Song, Su-Shing Chen:
Tracking the Intracellular Dynamics of Transferrin-labeled QDs in Living Panc-1 Cells. 330-334 - Jörg Meyer, Ash Pahwa, Peter Saveliev:
Image Analysis for High Content Screening with cellAnalyst. 335-340
Poster Papers
Biomedical Data Engineering
- Zong-Xian Yin:
Learning Scaling Coefficient in Possibilistic Latent Variable Algorithm from Complex Diagnosis Data. 341-343 - Sung-Huai Hsieh, Yin-Hsiu Chien, Chia-Ping Shen, Wei-Hsin Chen, Po-Hao Chen, Sheau-Ling Hsieh, Po-Hsun Cheng, Feipei Lai:
Newborn Screening System Based on Adaptive Feature Selection and Support Vector Machines. 344-347 - Ta-Cheng Chen, Jiunn-I Shieh, Kuei-Jen Lee, Jing-Doo Wang, Pei-Chun Chang, Hsiang-Chuan Liu:
Nonlinear Dynamic Indications in Time Series of Epilepsy Electroencephalogram. 348-351 - Taeju Lee, Hyekyung Jeong, Desok Kim, Byung-Do Lee:
Quantitative Analysis of Endodontic Treatment for Periapical Lesions in Intraoral Radiographs. 352-355 - Ming-Chih Shih, Shou-Hsuan Stephen Huang, Chung-Che Jeff Chang:
A Multidimensional Flow Cytometry Data Classification. 356-359
Biomedical Image Processing and Analysis
- Chia-Ling Tsai, Su-Ching Liang, William Warger, Charles DiMarzio:
Multi-Modal Registration of Embryonic Images for In Vitro Fertilization. 360-363 - Jen-Jie Chieh, Chi-How Chen, Shieh-Yueh Yang, Herng-Er Horng, Chin-Yih Hong, Hong-Chang Yang:
Immunomagnetical Reduction Using High Tc Superconducting Quantum Interference Device (SQUID). 364-365 - Myung-Eun Lee, Soo-Hyung Kim, Wan Hyun Cho, Soon-Young Park, Junsik Lim:
Segmentation of Brain MR Images Using an Ant Colony Optimization Algorithm. 366-369
Drug Discovery
- Po-Yuan Chen, Mien-De Jhuo, Wei-Tse Hsu, Tzu-Ching Shih, Tzu-Hurng Cheng:
The MAPK Signal Pathway Research and New Drug Discovery. 370-373
Molecular Evolution and Phylogeny
- Alan C. H. Chen, Han C. W. Hsiao, Jeffrey J. P. Tsai:
Phylogenetic Analysis Using Nuclear-Encoded Mitochondrial Proteins. 374-377 - Rong-Ming Chen, M. T. Hou, Jeffrey J. P. Tsai:
A Novel Approach for Motif Identification in Unaligned Molecular Sequences. 378-381 - Wei-Chen Liao, Nai-Kuei Huang:
Profiling the Nanoparticles Associated Protein-protein Interactions. 382-385 - Chia-Wei Weng, Chang-Chih Chiang, Chien-Hung Huang, Ka-Lok Ng:
A Platform for Identifying MicroRNA Targeting Genes. 386-387 - Chalothorn Liamwirat, Supapon Cheevadhanarak, Asawin Meechai, Sakarindr Bhumiratana:
Enzyme Relational Network Reveals Target Enzymes within Metabolic Submodules. 388-391
Special Session: Bioinformatics & Information Fusion
- Kang-Ping Liu, Lu-Shian Chang, Jinn-Moon Yang:
ATRIPPI: An Atom-residue Preference Scoring Function for Protein-protein Interactions. 392-399 - Christina Schweikert, Yanjun Li, David Dayya, David Yens, Martin Torrents, D. Frank Hsu:
Analysis of Autism Prevalence and Neurotoxins Using Combinatorial Fusion and Association Rule Mining. 400-404 - Tse-Yi Wang, Kuang-Chi Chen, D. Frank Hsu, Cheng-Yan Kao:
Combining Agent-Based Models with Stochastic Differential Equations for Gene Regulatory Networks. 405-409 - Cameron McMunn-Coffran, Christina Schweikert, D. Frank Hsu:
Microarray Gene Expression Analysis Using Combinatorial Fusion. 410-414
Workshop: Biomedical Informatics & Engineering
- Chung C. Chang, Hsueh-Ming Lu:
Integration of Heterogeneous Medical Decision Support Systems Based on Web Services. 415-422 - Mei-Ying Wang, Pei-Hsuan Tsai, Jane W.-S. Liu, John Kar-Kin Zao:
Wedjat: A Mobile Phone Based Medicine In-take Reminder and Monitor. 423-430 - I-Tzu Chen, Yong-Sheng Chen, Li-Fen Chen:
Beamformer-Based Spatiotemporal Imaging of Correlated Brain Activities. 431-434 - Chin-Teng Lin, Fu-Shu Yang, Te-Chung Chiou, Li-Wei Ko, Jeng-Ren Duann, Klaus Gramann:
EEG-Based Spatial Navigation Estimation in a Virtual Reality Driving Environment. 435-438 - Yu-Hsun Lee, Yong-Sheng Chen, Li-Fen Chen:
Automated Sleep Staging Using Single EEG Channel for REM Sleep Deprivation. 439-442 - Yao-Wen Chung, Yu-Sheng Lo, Wen-Sen Lee, Min-Huei Hsu, Chien-Tsai Liu:
Faster and Active Surveillance of Hospital-Acquired Infections: A Model for Settings with High Sensitivity Predictors. 443-448
Workshop: Semantic Biomedical Computing
- David A. Hecht, Phillip C.-Y. Sheu, Jeffrey J. P. Tsai:
SCDL Applications to Drug Discovery. 449-454 - Charles C. N. Wang, David A. Hecht, Han C. W. Hsiao, Phillip C.-Y. Sheu, Jeffrey J. P. Tsai:
Describing Dynamic Biological Systems in SPDL and SCDL. 455-460 - Chih-Hsuan Wei, I-Chin Huang, Yi-Yu Hsu, Hung-Yu Kao:
Normalizing Biomedical Name Entities by Similarity-Based Inference Network and De-ambiguity Mining. 461-466 - Jong-Waye Ou, Rouh-Mei Hu, Rong-Ming Chen, C. Y. Tang, Jeffrey J. P. Tsai:
An Integrative Tool for Gene Regulatory Network Reconstruction Based on Microarray Data. 467-470
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