5th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2011)

Front Matter....Pages -
Riskoweb: Web-Based Genetic Profiling to Complex Disease Using Genome-Wide SNP Markers....Pages 1-8
MC64: A Web Platform to Test Bioinformatics Algorithms in a Many-Core Architecture....Pages 9-16
Integrating Medical Patient Data with Family Trees to Improve the Quality of Information....Pages 17-22
Peptidase Detection and Classification Using Enhanced Kernel Methods with Feature Selection....Pages 23-30
An Image Processing Application for Quantification of Protein Aggregates in Caenorhabditis Elegans ....Pages 31-38
Workflows with Model Selection: A Multilocus Approach to Phylogenetic Analysis....Pages 39-47
Baiacu: A Tool for the Visual Analysis of the Saccharomyces Cerevisiae Regulatory Network....Pages 49-56
BBMS  + +  – Basic Bioinformatics Meta-searcher....Pages 57-62
Effective Parallelization of Non-bonded Interactions Kernel for Virtual Screening on GPUs....Pages 63-69
Tracking B Cells from Two-Photon Microscopy Images Using Sequential Monte Carlo....Pages 71-78
Experiments on Computer Assisted Optimization of the Escherichia Coli Fermentation Process Using Optferm....Pages 79-82
An Intuitive Workflow to Retrieve Somatic Mutations in Next Generation Sequencing Studies....Pages 83-86
Building a GATK-Based Tool for Methylation Analysis in Next-Generation Bisulfite Sequencing Experiments....Pages 87-91
EPIQuest: A Multiuser and Multiproject Web Tool to Build Online Forms for Biomedical Studies....Pages 93-98
Building Proteomics Applications with the AIBench Application Framework....Pages 99-107
Neurohand Solving the Inverse Cinematic of an Anthropomorphic Arm....Pages 109-115
An Enhancement of the Usage of the Poincare Index for the Detection and Classification of Characteristic Points in Dactylograms....Pages 117-124
Modelling of Tirapazamine Effects on Solid Tumour Morphology....Pages 125-132
MOGA-Based Multi-drug Optimisation for Cancer Chemotherapy....Pages 133-140
Multi-drug Infusion Control Using Model Reference Adaptive Algorithm....Pages 141-148
Fast and Accurate Genome Anchoring Using Fuzzy Hash Maps....Pages 149-156
A Parallel Niched Pareto Evolutionary Algorithm for Multiple Sequence Alignment....Pages 157-165
Phylogenetic Analysis Using an SMV Tool....Pages 167-174
An Efficient Motif Search Algorithm Based on a Minimal Forbidden Patterns Approach....Pages 175-182
Emerging Methodologies in Multiple Sequence Alignment Using High Throughput Data....Pages 183-190
DNA Sequence Search Using Content-Based Image Search Approach....Pages 191-199
Integrative Analysis of the Regulatory Region of the FGFR3 Oncogene....Pages 201-204
Distances between Dinucleotides in the Human Genome....Pages 205-211
Compressing the Human Genome Using Exclusively Markov Models....Pages 213-220
Highlighting Differential Gene Expression between Two Condition Microarrays through Multidimensional Scaling Comparison of Lesihmania Infantum Genomic Data Similarity Matrices....Pages 221-228
Biclustering-Based Classification of Clinical Expression Time Series: A Case Study in Patients with Multiple Sclerosis....Pages 229-239
A Simulation Study on the Impact of Strong Dependence in High-Dimensional Multiple-Testing I: The Case without Effects....Pages 241-246
Bioinformatics as a Tool to Help Characterise Perkinsus Olseni Up-Regulated Genes in Response to Its Host....Pages 247-253
Hybridization Dynamics Compensation in Microarray Experiments....Pages 255-261
Identification of Peptides with Deviating Regulation Factors Using a Robust Clustering Scheme....Pages 263-270
Prediction of Protein Distance Maps by Assembling Fragments According to Physicochemical Similarities....Pages 271-277
Residue-Residue Contact Prediction Based on Evolutionary Computation....Pages 279-283
NcPred for Accurate Nuclear Protein Prediction Using n-mer Statistics with Various Classification Algorithms....Pages 285-292
Relating Formalisms for the Qualitative Modelling of Regulatory Networks....Pages 293-302
Interpreting the Regulatory Interplay in E. coli Metabolic Pathways....Pages 303-312
A Systematic Modeling Approach to Elucidate the Triggering of the Stringent Response in Recombinant E. coli Systems....Pages 313-320
Modeling Cellular Signaling Systems: An Abstraction-Refinement Approach....Pages 321-328
A Study on the Robustness of Strain Optimization Algorithms....Pages 329-336
Assessing the Suitability of MeSH Ontology for Classifying Medline Documents....Pages 337-344
Assessing the Impact of Class-Imbalanced Data for Classifying Relevant/Irrelevant Medline Documents....Pages 345-353
Assessing the Effect of 2D Fingerprint Filtering on ILP-Based Structure-Activity Relationships Toxicity Studies in Drug Design....Pages 355-363
Using Dictionaries for Biomedical Text Classification....Pages 365-372
Using Machine Learning Techniques and Genomic/Proteomic Information from Known Databases for PPI Prediction....Pages 373-380
Prioritizing Literature Search Results Using a Training Set of Classified Documents....Pages 381-388
Improving Reproducibility on Tree Based Multimarker Methods: TreeDTh....Pages 389-396
Back Matter....Pages -