Bioinformatics Research and Development: First International Conference, BIRD 2007, Berlin, Germany, March 12-14, 2007. Proceedings

Front Matter....Pages -
Bayesian Inference of Gene Regulatory Networks Using Gene Expression Time Series Data....Pages 1-15
Biological Network Inference Using Redundancy Analysis....Pages 16-27
A Novel Graph Optimisation Algorithm for the Extraction of Gene Regulatory Networks from Temporal Microarray Data....Pages 28-37
Analysing Periodic Phenomena by Circular PCA....Pages 38-47
Identification of Cold-Induced Genes in Cereal Crops and Arabidopsis Through Comparative Analysis of Multiple EST Sets....Pages 48-65
Mining Spatial Gene Expression Data for Association Rules....Pages 66-76
Individualized Predictions of Survival Time Distributions from Gene Expression Data Using a Bayesian MCMC Approach....Pages 77-89
Comparing Logic Regression Based Methods for Identifying SNP Interactions....Pages 90-103
Stochastical Analysis of Finite Point Sampling of 3D Chromatin Fiber in Interphase Cell Nuclei....Pages 104-118
Structural Screening of HIV-1 Protease/Inhibitor Docking by Non-parametric Binomial Distribution Test....Pages 119-130
satDNA Analyzer 1.2 as a Valuable Computing Tool for Evolutionary Analysis of Satellite-DNA Families: Revisiting Y-Linked Satellite-DNA Sequences of Rumex (Polygonaceae)....Pages 131-139
A Soft Hierarchical Algorithm for the Clustering of Multiple Bioactive Chemical Compounds....Pages 140-153
A Novel Method for Flux Distribution Computation in Metabolic Networks....Pages 154-167
Inverse Bifurcation Analysis of a Model for the Mammalian G 1 / S Regulatory Module....Pages 168-184
Weighted Cohesiveness for Identification of Functional Modules and Their Interconnectivity....Pages 185-198
Modelling and Simulation of the Genetic Phenomena of Additivity and Dominance via Gene Networks of Parallel Aggregation Processes....Pages 199-211
Protein Remote Homology Detection Based on Binary Profiles....Pages 212-223
Biological Sequences Encoding for Supervised Classification....Pages 224-238
Fast Search Algorithms for Position Specific Scoring Matrices....Pages 239-250
A Markovian Approach for the Segmentation of Chimpanzee Genome....Pages 251-262
Synthetic Protein Sequence Oversampling Method for Classification and Remote Homology Detection in Imbalanced Protein Data....Pages 263-277
Stem Kernels for RNA Sequence Analyses....Pages 278-291
Prediction of Structurally-Determined Coiled-Coil Domains with Hidden Markov Models....Pages 292-302
Patch Prediction of Protein Interaction Sites: Validation of a Scoring Function for an Online Server....Pages 303-313
Statistical Inference on Distinct RNA Stem-Loops in Genomic Sequences....Pages 314-327
Interpretation of Protein Subcellular Location Patterns in 3D Images Across Cell Types and Resolutions....Pages 328-342
Bayesian Inference for 2D Gel Electrophoresis Image Analysis....Pages 343-356
SimShiftDB: Chemical-Shift-Based Homology Modeling....Pages 357-370
Annotation of LC/ESI-MS Mass Signals....Pages 371-380
Stochastic Protein Folding Simulation in the d-Dimensional HP-Model....Pages 381-394
Enhancing Protein Disorder Detection by Refined Secondary Structure Prediction....Pages 395-409
Joining Softassign and Dynamic Programming for the Contact Map Overlap Problem....Pages 410-423
An Evaluation of Text Retrieval Methods for Similarity Search of Multi-dimensional NMR-Spectra....Pages 424-438
Ontology-Based MEDLINE Document Classification....Pages 439-452
Integrating Mutations Data of the TP53 Human Gene in the Bioinformatics Network Environment....Pages 453-463
Efficient and Scalable Indexing Techniques for Biological Sequence Data....Pages 464-479
Back Matter....Pages -