BIBM 2007: Silicon Valley, CA, USA
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2007, Silicon Valley, CA, USA, November 2-4, 2007. IEEE Computer Society 2007
Kenotes
- Russ B. Altman: Combining Simulation and Machine Learning to Recognize Function in 4D. 3
- Michael I. Jordan: Statistical Machine Learning and Computational Biology. 4
- Richard M. Karp: Computer Science as a Lens on the Sciences: The Example of Computational Molecular Biology. 5
Biological Data Mining
- Ricardo Martínez, Claude Pasquier, Nicolas Pasquier: GenMiner: Mining Informative Association Rules from Genomic Data. 15-22
- Sun Kim, Ankita Bhan, Bharath K. Maryada, Kwangmin Choi, Yves V. Brun: EGGS: Extraction of Gene Clusters Using Genome Context Based Sequence Matching Techniques. 23-28
- Mutlu Mete, Xiaowei Xu, Chun-Yang Fan, Gal Shafirstein: A Machine Learning Approach for Identification of Head and Neck Squamous Cell Carcinoma. 29-34
- Feihong Wu, Fadi Towfic, Drena Dobbs, Vasant Honavar: Analysis of Protein Protein Dimeric Interfaces. 35
- Dharmesh Thakkar, Carolina Ruiz, Elizabeth F. Ryder: Hypothesis-Driven Specialization of Gene Expression Association Rules. 48-55
- Razvan Andonie, Levente Fabry-Asztalos, Lukas Magill, Sarah Abdul-Wahid: A New Fuzzy ARTMAP Approach for Predicting Biological Activity of Potential HIV-1 Protease Inhibitors. 56-61
- Yutaka Sasaki, Brian Rea, Sophia Ananiadou: Multi-topic Aspects in Clinical Text Classification. 62-70
High Performance Bio-computing
- Jaegul Choo, Hyunsoo Kim, Haesun Park, Hongyuan Zha: A Comparison of Unsupervised Dimension Reduction Algorithms for Classification. 71-77
- Antonio Ruiz, Olcay Sertel, Manuel Ujaldon, Ümit V. Çatalyürek, Joel H. Saltz, Metin N. Gurcan: Pathological Image Analysis Using the GPU: Stroma Classification for Neuroblastoma. 78-88
Genomics, Comparative Genomics
- Winnie W. M. Lam, Keith C. C. Chan, David K. Y. Chiu, Andrew K. C. Wong: MAGMA: An Algorithm for Mining Multi-level Patterns in Genomic Data. 89-94
- Arnaud Fontaine, Hélène Touzet: Computational Identification of Protein-Coding Sequences by Comparative Analysis. 95-102
Biological Databases, Data Integration and Visualization
- Denise Jones, Ying Jin, Huaqin Xu: An Active Rule-Based Approach for Constraint Management of Biological Data in XML Documents. 111-116
- Paul M. K. Gordon, Edward A. Kawas, Mark D. Wilkinson, Christoph W. Sensen: Using a Novel Data Transformation Technique to Provide the EMBOSS Software Suite as Semantic Web Services. 117-124
- Dragana Veljkovic, Kay A. Robbins, Doug Rubino, Nicholas G. Hatsopoulos: Exploring and Organizing Spatiotemporal Features such as Waves in High Throughput Brain Recordings by Lifting to Feature Space. 125-134
Molecular Sequence Analysis
- Shengyin Gu, Olivier Poch, Bernd Hamann, Patrice Koehl: A Geometric Representation of Protein Sequences. 135-142
- Feng Yue, Jijun Tang: A Divide-and-Conquer Implementation of Three Sequence Alignment and Ancestor Inference. 143-150
- Dan He, Xindong Wu, Xingquan Zhu: SAIL-APPROX: An Efficient On-Line Algorithm for Approximate Pattern Matching with Wildcards and Length Constraints. 151-158
- Abanish Singh, Cédric Feschotte, Nikola Stojanovic: Micro-repetitive Structure of Genomic Sequences and the Identification of Ancient Repeat Elements. 165-171
- Shihyen Chen, Bin Ma, Kaizhong Zhang: The Normalized Similarity Metric and Its Applications. 172-180
Healthcare Informatics
- Kimiko Matsuoka, Shigeki Yokoyama, Kunitomo Watanabe, Shusaku Tsumoto: Mining Rules for Risk Factors on Blood Stream Infection in Hospital Information System. 181-187
- Soo-Yeon Ji, Toan Huynh, Kayvan Najarian: A Comparative Medical Informatics Approach to Traumatic Pelvic Injuries. 188-193
- Oliver Amft, Martin Kusserow, Gerhard Tröster: Automatic Identification of Temporal Sequences in Chewing Sounds. 194-201
- Sai T. Moturu, William G. Johnson, Huan Liu: Predicting Future High-Cost Patients: A Real-World Risk Modeling Application. 202-208
- Aaron M. Smalter, Seak Fei Lei, Xue-wen Chen: Human Disease-Gene Classification with Integrative Sequence-Based and Topological Features of Protein-Protein Interaction Networks. 209-216
Proteomics, Computational Proteomics
- Tingting Li, Hu Fu, Xuegong Zhang: Prediction of Kinase-Specific Phosphorylation Sites by One-Class SVMs. 217-222
- Byung-Hoon Park, Bing Zhang, Tatiana V. Karpinets, Nagiza F. Samatova: Multi-stage Framework to Infer Protein Functional Modules from Mass Spectrometry Pull-Down Data with Assessment of Biological Relevance. 223-229
- Karin Noy, Daniel P. Fasulo: Robust Estimation and Graph-Based Meta Clustering for LC-MS Feature Extraction. 230-236
- Jung Hun Oh, Young Bun Kim, Jean Gao: A Novel Classification Method for Analysis of Multi-stage Diseases via Mass Spectrometric Data. 237-244
Protein Structure
- Satu Jääskeläinen, Pentti Riikonen, Tapio Salakoski, Mauno Vihinen: Evaluation of Protein Hydropathy Scales. 245-251
- Christophe Nicolas Magnan, Cécile Capponi, François Denis: A Protocol to Detect Local Affinities Involved in Proteins Distant Interactions. 252-257
- Frank DiMaio, Ameet Soni, George N. Phillips, Jude W. Shavlik: Improved Methods for Template-Matching in Electron-Density Maps Using Spherical Harmonics. 258-265
- Yhi Shiau, Jia-Nan Wang, Yu-Feng Huang, Chien-Kang Huang: Heuristic Strategy for Geometric Hashing Based Protein Structure Comparison of Ellipsoidal Representation. 266-274
Computational Systems Biology
- Doan Dai Duong, Patricia A. Evans: A Haplotyping Algorithm for Non-recombinant Pedigree Data Containing Missing Members. 275-281
- Dumitru Brinza, Alexander Zelikovsky: Risk Factor Searching Heuristics for SNP Case-Control Studies. 282-287
- Luca Bortolussi, Simone Fonda, Alberto Policriti: Constraint-Based Simulation of Biological Systems Described by Molecular Interaction Maps. 288-293
- Yudong Sun, Steve McKeever, Kia Balali-Mood, Mark S. P. Sansom: A Multiscale Model for Efficient Simulation of a Membrane Bound Viral Fusion Peptide. 294-301
- Jiaxing Xue, Jean Gao, Liping Tang: Mathematical Modeling of Phagocyte Chemotaxis toward and Adherence to Biomaterial Implants. 302-307
- Samik Ghosh, Preetam Ghosh, Kalyan Basu, Sajal K. Das: Modeling the Stochastic Dynamics of Gene Expression in Single Cells: A Birth and Death Markov Chain Analysis. 308-316
Microarray Design and Data Analysis
- Fatih Altiparmak, Selnur Erdal, Ozgur Ozturk, Hakan Ferhatosmanoglu: A Multi-metric Similarity Based Analysis of Microarray Data. 317-324
- Brandon J. Smith, Bruce R. Southey, Sandra L. Rodriguez-Zas: Smoothing Spline Mixed Effects Modeling of Multifactorial Gene Expression Profiles. 325-332
BioOntologies
- Oliver Ruebenacker, Ion I. Moraru, James C. Schaff, Michael L. Blinov: Kinetic Modeling Using BioPAX Ontology. 339-348
Gene Networks, Pathways, Networks, Systems Biology
- Leonardo Bobadilla, Fernando Niño, Edilberto Cepeda, Manuel A. Patarroyo: A Novel Methodology for Characterizing and Predicting Protein Functional Sites. 349-354
- Valeria Fionda, Luigi Palopoli, Simona Panni, Simona E. Rombo: GRAPPIN: Bipartite GRAph Based Protein-Protein Interaction Network Similarity Search. 355-361
- Younhee Ko, Chengxiang Zhai, Sandra L. Rodriguez-Zas: Inference of Gene Pathways Using Gaussian Mixture Models. 362-367
- Xin Li, Zhu Zhang, Hsinchun Chen, Jiexun Li: Graph Kernel-Based Learning for Gene Function Prediction from Gene Interaction Network. 368-373
- Fang Fang, Robert L. Grossman, Xiangjun Liu: An Algorithm for Assigning Unique Keys to Metabolic Pathways. 374-382
Signal and Image Processing in BioMedicine
- Hara Stefanou, Thanasis Margaritis, Dimitris Kafetzopoulos, Konstantinos Marias, Panagiotis Tsakalides: Microarray Image Denoising Using a Two-Stage Multiresolution Technique. 383-389
- Santa Di Cataldo, Elisa Ficarra, Enrico Macii: Selection of Tumor Areas and Segmentation of Nuclear Membranes in Tissue Confocal Images: A Fully Automated Approach. 390-398
BioMedical Databases and Information Systems, BioMedical Information
- Chetan Mittal, Nevenka Dimitrova, Vijaykumar Channakeshava: MDDM: A Resource for Differential Methylation in Cancer. 399-405
- James Zijun Wang, Zhidian Du, Philip S. Yu, Chin-Fu Chen: An Efficient Online Tool to Search Top-N Genes with Similar Biological Functions in Gene Ontology Database. 406-411
- Fusheng Wang, Cornelius Rabsch, Peiya Liu: Using SVG to Model and Query Image Annotations and Their History. 412-422
Intelligent Biomedical Knowledge Discovery
- Thanh Phuong Nguyen, Tu Bao Ho: A Semi-supervised Learning Approach to Disease Gene Prediction. 423-428
- Michele Berlingerio, Francesco Bonchi, Fosca Giannotti, Franco Turini: Mining Clinical Data with a Temporal Dimension: A Case Study. 429-436
- Quan Wen, Jean Gao, Kate Luby-Phelps: Multiple Interacting Subcellular Structure Tracking by Sequential Monte Carlo Method. 437-442
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