Software Tools and Algorithms for Biological Systems

Editors:

ISBN: 978-1-4419-7045-9 (Print) 978-1-4419-7046-6 (Online)

Table of contents (77 chapters)

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  1. Front Matter

    Pages i-xli

  2. Computational Methods for Microarray, Gene Expression Analysis, and Gene Regulatory Networks

    1. Front Matter

      Pages 1-1

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      Chapter

      Pages 3-15

      A Technical Platform for Generating Reproducible Expression Data from Streptomyces coelicolor Batch Cultivations

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      Chapter

      Pages 17-25

      MiRNA Recognition with the yasMiR System: The Quest for Further Improvements

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      Chapter

      Pages 27-35

      Top Scoring Pair Decision Tree for Gene Expression Data Analysis

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      Chapter

      Pages 37-43

      Predictive Minimum Description Length Principle Approach to Inferring Gene Regulatory Networks

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      Chapter

      Pages 45-55

      Parsimonious Selection of Useful Genes in Microarray Gene Expression Data

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      Chapter

      Pages 57-65

      Hierarchical Signature Clustering for Time Series Microarray Data

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      Chapter

      Pages 67-74

      Microarray Database Mining and Cell Differentiation Defects in Schizophrenia

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      Chapter

      Pages 75-82

      miRNA Prediction Using Computational Approach

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      Chapter

      Pages 83-90

      Improving the Accuracy of Gene Expression Profile Classification with Lorenz Curves and Gini Ratios

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      Chapter

      Pages 91-100

      Feature Selection in Gene Expression Data Using Principal Component Analysis and Rough Set Theory

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      Chapter

      Pages 101-111

      Dramatically Reduced Precision in Microarray Analysis Retains Quantitative Properties and Provides Additional Benefits

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      Chapter

      Pages 113-122

      Algebraic Model Checking for Boolean Gene Regulatory Networks

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      Chapter

      Pages 123-134

      Comparative Advantages of Novel Algorithms Using MSR Threshold and MSR Difference Threshold for Biclustering Gene Expression Data

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      Chapter

      Pages 135-143

      Performance Comparison of SLFN Training Algorithms for DNA Microarray Classification

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      Chapter

      Pages 145-153

      Clustering Microarray Data to Determine Normalization Method

  3. Bioinformatics Databases, Data Mining, and Pattern Discovery Techniques

    1. Front Matter

      Pages 155-155

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      Chapter

      Pages 157-170

      Estimation, Modeling, and Simulation of Patterned Growth in Extreme Environments

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      Chapter

      Pages 171-179

      Performance of Univariate Forecasting on Seasonal Diseases: The Case of Tuberculosis

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      Chapter

      Pages 181-190

      Predicting Individual Affect of Health Interventions to Reduce HPV Prevalence

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      Chapter

      Pages 191-199

      Decision Tree and Ensemble Learning Algorithms with Their Applications in Bioinformatics

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      Chapter

      Pages 201-209

      Pattern Recognition of Surface EMG Biological Signals by Means of Hilbert Spectrum and Fuzzy Clustering

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