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Part I Biomedical Big Data; Extreme Observations in Biomedical Data; 1 Introduction; 2 Methods; 3 Application to Data in Autism Multiplex Families; 4 Application to Gene Expression Data in Cancer; References; An Ordinal Joint Model for Breast Cancer; 1 Introduction; 2 A Bayesian Joint Model for Ordinal Longitudinal and Left Truncated Survival Data; 3 Breast Cancer and Mammographic Breast Density; References; Sample Size Impact on the Categorisation of Continuous Variables in Clinical Prediction; 1 Motivation; 2 Methods
2.1 Categorisation Proposal Based on GAM with P-Spline Smoothers2.2 Optimal Categorisation Based on the Maximisation of the AUC; 3 Simulation Study; 3.1 Scenarios and Set Up; 3.2 Results; 4 Conclusions; References; Integrative Analysis of Transcriptomics and Proteomics Data for the Characterization of Brain Tissue After Ischemic Stroke; 1 Introduction and Objectives; 2 Methods; 3 Results; 4 Conclusions; References; Applying INAR-Hidden Markov Chains in the Analysis of Under-Reported Data; 1 Introduction; 2 The Model; 2.1 Parameter Estimation; 2.2 Reconstruction of the Underlying Process
2.3 Model Selection and Goodness of Fit3 Example of Application; References; Joint Modelling for Flexible Multivariate Longitudinal and Survival Data: Application in Orthotopic Liver Transplantation; 1 Introduction; 2 Orthotopic Liver Transplantation Data; 3 Two-Stage Model Based Proposal; 3.1 Stage 1: Flexible Multivariate Longitudinal Data; 3.2 Stage 2: Survival Model; 4 Conclusions; References; A Multi-state Model for the Progression to Osteopenia and Osteoporosis Among HIV-Infected Patients; 1 Motivation; 2 Multi-state Model; 2.1 Notation; 2.2 Estimation Method; 3 Results
3.1 Descriptive Analysis3.2 Estimated Transition Probabilities; 4 Discussion; References; Statistical Challenges for Human Microbiome Analysis; 1 Introduction; 2 Methods; 3 Results; 4 Conclusions; References; Integrative Analysis to Select Genes Regulated by Methylation in a Cancer Colon Study; 1 Introduction and Objectives; 2 Methods for L-Pattern Selection; 2.1 Gene Selection Based on Conditional Mutual Information; 2.2 Gene Selection Based on Spline Regression; 3 Results and Application: Selecting L-Shaped Genes from a Genome-Wide Analysis of Colorectal Cancer
3.1 Results Using the Conditional Mutual Information Approach3.2 Results Using Splines Regression to Select Genes; 4 Discussion and Conclusions; References; Topological Pathway Enrichment Analysis of Gene Expression in High Grade Serous Ovarian Cancer Reveals Tumor-Stoma Cross-Talk; 1 Introduction; 2 Methods; 3 Results; 4 Discussion; 5 Conclusion; References; Part II Statistics for Low Dose Radiation Research; Biological Dosimetry, Statistical Challenges: Biological Dosimetry After High-Dose Exposures to Ionizing Radiation; References
2.1 Categorisation Proposal Based on GAM with P-Spline Smoothers2.2 Optimal Categorisation Based on the Maximisation of the AUC; 3 Simulation Study; 3.1 Scenarios and Set Up; 3.2 Results; 4 Conclusions; References; Integrative Analysis of Transcriptomics and Proteomics Data for the Characterization of Brain Tissue After Ischemic Stroke; 1 Introduction and Objectives; 2 Methods; 3 Results; 4 Conclusions; References; Applying INAR-Hidden Markov Chains in the Analysis of Under-Reported Data; 1 Introduction; 2 The Model; 2.1 Parameter Estimation; 2.2 Reconstruction of the Underlying Process
2.3 Model Selection and Goodness of Fit3 Example of Application; References; Joint Modelling for Flexible Multivariate Longitudinal and Survival Data: Application in Orthotopic Liver Transplantation; 1 Introduction; 2 Orthotopic Liver Transplantation Data; 3 Two-Stage Model Based Proposal; 3.1 Stage 1: Flexible Multivariate Longitudinal Data; 3.2 Stage 2: Survival Model; 4 Conclusions; References; A Multi-state Model for the Progression to Osteopenia and Osteoporosis Among HIV-Infected Patients; 1 Motivation; 2 Multi-state Model; 2.1 Notation; 2.2 Estimation Method; 3 Results
3.1 Descriptive Analysis3.2 Estimated Transition Probabilities; 4 Discussion; References; Statistical Challenges for Human Microbiome Analysis; 1 Introduction; 2 Methods; 3 Results; 4 Conclusions; References; Integrative Analysis to Select Genes Regulated by Methylation in a Cancer Colon Study; 1 Introduction and Objectives; 2 Methods for L-Pattern Selection; 2.1 Gene Selection Based on Conditional Mutual Information; 2.2 Gene Selection Based on Spline Regression; 3 Results and Application: Selecting L-Shaped Genes from a Genome-Wide Analysis of Colorectal Cancer
3.1 Results Using the Conditional Mutual Information Approach3.2 Results Using Splines Regression to Select Genes; 4 Discussion and Conclusions; References; Topological Pathway Enrichment Analysis of Gene Expression in High Grade Serous Ovarian Cancer Reveals Tumor-Stoma Cross-Talk; 1 Introduction; 2 Methods; 3 Results; 4 Discussion; 5 Conclusion; References; Part II Statistics for Low Dose Radiation Research; Biological Dosimetry, Statistical Challenges: Biological Dosimetry After High-Dose Exposures to Ionizing Radiation; References