Intro
Preface
Organization
Contents - Part I
Contents - Part II
Analysis of Molecular Dynamics Data in Proteomics
Recognition of Conformational States of a G Protein-Coupled Receptor from Molecular Dynamic Simulations Using Sampling Techniques
1 Introduction
2 Materials and Methods
2.1 Class Imbalance Correction Methods
2.2 Experimental Setup
2.3 Evaluation Metrics for Imbalanced Data Problems
3 Results and Discussion
3.1 Interpretation Results
4 Conclusions
References

Identification of InhA-Inhibitors Interaction Fingerprints that Affect Residence Time
1 Introduction
1.1 Ligand-Receptor Binding Kinetics
1.2 Computer Methods to Determine Binding Kinetic Parameters
1.3 Research Objective
2 Mycobacterium Enoyl Acyl Carrier Protein Reductase (InhA)
3 Methods
4 Results
4.1 Ligand Similarity
4.2 Drug-Like Ligand Properties that Affect Residence Time
5 Discussion and Conclusions
References
Bioinformatics
Validation of Height-for-Age and BMI-for-Age Z-scores Assessment Using Android-Based Mobile Apps
1 Introduction

2 Methods
2.1 Subjects
2.2 Anthropometric Measurements
2.3 Z-score Calculation
2.4 Statistical Analysis
3 Outcomes
4 Discussion
5 Conclusion
6 Limitations
References
An Algorithm for Pairwise DNA Sequences Alignment
1 Introduction
2 Related Work
3 An Algorithm for Pairwise DNA Sequences Alignment Based on the Proposed CAT Method
4 Experimental Results and Analysis
4.1 Implementation of the Proposed Method CAT for Sequences Alignment
4.2 Collision Analysis
4.3 Performance Analysis
5 Conclusion
References

Multiallelic Maximal Perfect Haplotype Blocks with Wildcards via PBWT
1 Introduction
2 Finding Maximal Blocks with Wildcards
3 The Algorithm
3.1 Positional BWT Extended to Wildcards
3.2 Building the Extended PBWT
3.3 Computing the Maximal Blocks
4 Experimental Results
5 Conclusions
References
GPU Cloud Architectures for Bioinformatic Applications
1 Introduction
2 GPU Usage in Bioinformatics
3 Processing Outsourcing
4 GPU Virtualisation in Cloud Architectures
5 Architecture Characteristics
6 Experiments
7 Conclusions
References

Biomarker Identification
Novel Gene Signature for Bladder Cancer Stage Identification
1 Introduction
2 Data Description
3 Metodology
3.1 Differential Expressed Genes Extraction and Visualization
3.2 Development of Classification Models
4 Results and Discussion
4.1 Gene Enrichment
5 Conclusions
References
Predicting Cancer Stage from Circulating microRNA: A Comparative Analysis of Machine Learning Algorithms
1 Introduction
2 Materials and Methods
2.1 Study Cohort
2.2 Algorithms
2.3 Evaluation Metrics
2.4 Experimental Design