Abstract is missing.
- Preface [doi]
- BioImage Data Mining and Informatics [doi]
- Committees [doi]
- BioSPICE and Use Cases [doi]
- Referees [doi]
- Controlling Complexity [doi]
- Challenges in Creating an Infrastructure for Physics-Based Simulation of Biological StructuresRuss B. Altman. 3 [doi]
- Ontologies for Biologists - A Community Model for the Annotation of Genomic DataMichael Ashburner. 7 [doi]
- The National Alliance for Medical Imaging Computing (NA-MIC)Ron Kikinis. 8 [doi]
- The Center for Computational BiologyArthur W. Toga. 9 [doi]
- Identifying Simple Discriminatory Gene Vectors with an Information Theory ApproachZheng Yun, Kwoh Chee Keong. 13-24 [doi]
- Learning Yeast Gene Functions from Heterogeneous Sources of Data Using Hybrid Weighted Bayesian NetworksXutao Deng, Huimin Geng, Hesham H. Ali. 25-34 [doi]
- Consensus Genetic Maps: A Graph Theoretic ApproachBenjamin G. Jackson, Srinivas Aluru, Patrick S. Schnable. 35-43 [doi]
- Gene Teams with Relaxed Proximity ConstraintSun Kim, Jeong-Hyeon Choi, Jiong Yang. 44-55 [doi]
- Efficient Algorithms and Software for Detection of Full-Length LTR RetrotransposonsAnantharaman Kalyanaraman, Srinivas Aluru. 56-64 [doi]
- Islands of Tractability for Parsimony HaplotypingRoded Sharan, Bjarni V. Halldórsson, Sorin Istrail. 65-72 [doi]
- Accurate Prediction of Orthologous Gene Groups in MicrobesHongwei Wu, Fenglou Mao, Victor Olman, Ying Xu. 73-79 [doi]
- Motif Extraction and Protein ClassificationVered Kunik, Zach Solan, Shimon Edelman, Eytan Ruppin, David Horn. 80-85 [doi]
- Discriminative Discovery of Transcription Factor Binding Sites from Location DataYuji Kawada, Yasubumi Sakakibara. 86-89 [doi]
- Reconstructing Phylogenetic Networks Using Maximum ParsimonyLuay Nakhleh, Guohua Jin, Fengmei Zhao, John M. Mellor-Crummey. 93-102 [doi]
- An Efficient Algorithm for Perfect Phylogeny HaplotypingRavi Vijaya Satya, Amar Mukherjee. 103-110 [doi]
- TreeRefiner: A Tool for Refining a Multiple Alignment on a Phylogenetic TreeAswath Manohar, Serafim Batzoglou. 111-119 [doi]
- Multi-Metric and Multi-Substructure Biclustering Analysis for Gene Expression DataSun-Yuan Kung, Man-Wai Mak, Ilias Tagkopoulos. 123-134 [doi]
- Analysis of SNP-Expression Association MatricesAnya Tsalenko, Roded Sharan, Hege Edvardsen, Vessela Kristensen, Anne-Lise Børresen-Dale, Amir Ben-Dor, Zohar Yakhini. 135-143 [doi]
- A Learned Comparative Expression Measure for Affymetrix GeneChip DNA MicroarraysWill Sheffler, Eli Upfal, John Sedivy, William Stafford Noble. 144-154 [doi]
- Identification of Post-Translational Modifications via Blind Search of Mass-SpectraDekel Tsur, Stephen Tanner, Ebrahim Zandi, Vineet Bafna, Pavel A. Pevzner. 157-166 [doi]
- Discover True Association Rates in Multi-protein Complex Proteomics Data SetsChangyu Shen, Lang Li, Jake Yue Chen. 167-174 [doi]
- Peptide Charge State Determination for Low-Resolution Tandem Mass SpectraAaron A. Klammer, Christine C. Wu, Michael J. MacCoss, William Stafford Noble. 175-185 [doi]
- An Efficient and Accurate Algorithm for Assigning Nuclear Overhauser Effect Restraints Using a Rotamer Library Ensemble and Residual Dipolar CouplingsLincong Wang, Bruce Randall Donald. 189-202 [doi]
- Multi-Scale Hierarchical Structure Prediction of Helical Transmembrane ProteinsZhong Chen, Ying Xu. 203-207 [doi]
- Deformable Modeling for Improved Calculation of Molecular Velocities from Single-Particle TrackingPeter M. Kasson, Mark M. Davis, Axel T. Brünger. 208-211 [doi]
- PSIST: Indexing Protein Structures Using Suffix TreesFeng Gao, Mohammed Javeed Zaki. 212-222 [doi]
- Tree Decomposition Based Fast Search of RNA Structures Including Pseudoknots in GenomesYinglei Song, Chunmei Liu, Russell L. Malmberg, Fangfang Pan, Liming Cai. 223-234 [doi]
- An Algebraic Geometry Approach to Protein Structure Determination from NMR DataLincong Wang, Ramgopal R. Mettu, Bruce Randall Donald. 235-246 [doi]
- A Tree-Decomposition Approach to Protein Structure PredictionJinbo Xu, Feng Jiao, Bonnie Berger. 247-256 [doi]
- A Pivoting Algorithm for Metabolic Networks in the Presence of Thermodynamic ConstraintsR. Nigam, S. Liang. 259-267 [doi]
- A Topological Measurement for Weighted Protein Interaction NetworkPengjun Pei, Aidong Zhang. 268-278 [doi]
- Application of a Generalized MWC Model for the Mathematical Simulation of Metabolic Pathways Regulated by Allosteric EnzymesTarek S. Najdi, Chin-Rang Yang, Bruce E. Shapiro, G. Wesley Hatfield, Eric Mjolsness. 279-288 [doi]
- Estimating Time-Dependent Gene Networks from Time Series Microarray Data by Dynamic Linear Models with Markov SwitchingRyo Yoshida, Seiya Imoto, Tomoyuki Higuchi. 289-298 [doi]
- Choosing SNPs Using Feature SelectionTu Minh Phuong, Zhen Lin, Russ B. Altman. 301-309 [doi]
- Robust and Accurate Cancer Classification with Gene Expression ProfilingHaifeng Li, Keshu Zhang, Tao Jiang. 310-321 [doi]
- A Robust Meta-classification Strategy for Cancer Diagnosis from Gene Expression DataGabriela Alexe, Gyan Bhanot, Babu Venkataraghavan, Ramakrishna Ramaswamy, Jorge Lepre, Arnold J. Levine, Gustavo Stolovitzky. 322-325 [doi]
- Clustering Genes Using Gene Expression and Text Literature DataChengyong Yang, Erliang Zeng, Tao Li, Giri Narasimhan. 329-340 [doi]
- Electron Microscope Tomography of Cells and Tissues: Studying the 3D Structure of Molecular Machines at Molecular ResolutionManfred Auer. 339 [doi]
- PET Imaging of Tumor Integrin ExpressionWeibo Cai, Xiaoyuan Chen. 340-349 [doi]
- Bioinformatic Insights from Metagenomics through VisualizationSusan L. Havre, Bobbie-Jo M. Webb-Robertson, Anuj R. Shah, Christian Posse, Banu Gopalan, Fred J. Brockman. 341-350 [doi]
- Volume Measurements in the Embryonic Zebrafish Heart using 4D Confocal MicroscopyMichael Liebling, Scott E. Fraser, Mary E. Dickinson, Arian S. Forouhar, Morteza Gharib. 350 [doi]
- Multispectral Multidimensional Multiplexed Data: The More, the MerrierRichard M. Levenson, Clifford Hoyt, Jim Mansfield, Kirk Gossage. 351 [doi]
- On Optimizing Distance-Based Similarity Search for Biological DatabasesRui Mao, Weijia Xu, Smriti R. Ramakrishnan, Glen Nuckolls, Daniel P. Miranker. 351-361 [doi]
- Computational Method for Temporal Pattern Discovery in Biomedical Genomic DatabasesMohammed I. Rafiq, Martin J. O Connor, Amar K. Das. 362-365 [doi]
- Investigation into Biomedical Literature Classification Using Support Vector MachinesNalini Polavarapu, Shamkant B. Navathe, Ramprasad Ramnarayanan, Abrar ul Haque, Saurav Sahay, Ying Liu. 366-374 [doi]
- Automated Validation of Polymerase Chain Reactions Using Amplicon Melting CurvesTobias P. Mann, Richard Humbert, John A. Stamatoyannopoulos, William Stafford Noble. 377-385 [doi]