فهرست مطالب کتاب بیوانفورماتیک ترجمه ای برای پیشرفت درمانی:

Preface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v

About the Editor . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xi

Contributors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii

1 Development and Optimization of Clinical Informatics Infrastructure to Support Bioinformatics at an Oncology Center . . . . . . . . . . . . . . . . . . . . . . . . . . 1

2 Leveraging Pathology Informatics Concepts to Achieve Discrete Lab Data for Clinical Use and Translational Research . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 21

3 Cohort Identification for Translational Bioinformatics Studies. . . . . . . . . . . . . . . . 35

4 Transitioning Clinical Practice Guidelines into the Electronic Health Record through Clinical Pathways. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 45

5 Variable Selection for Time-to-Event Data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61

6 Binary Classification for Failure Risk Assessment . . . . . . . . . . . . . . . . . . . . . . . . . . . . 77

7 Challenges and Opportunities of Genomic Approaches in Therapeutics Development . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 107

8 Accessible Pipeline for Translational Research Using TCGA: Examples of Relating Gene Mechanism to Disease-Specific Outcomes . . . . . . . . . 127

9 Statistical and Bioinformatics Analysis of Data from Bulk and Single-Cell RNA Sequencing Experiments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 143

10 Investigating Inter- and Intrasample Diversity of Single-Cell RNA Sequencing Datasets . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 177

11 Managing a Large-Scale Multiomics Project: A Team Science Case Study in Proteogenomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 187

12 Synergistic Drug Combination Prediction by Integrating Multiomics Data in Deep Learning Models . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 223

13 Introduction to Multiparametric Flow Cytometry and Analysis of High-Dimensional Data. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 239

14 High-Dimensional Flow Cytometry Analysis of Regulatory Receptors on Human T Cells, NK Cells, and NKT Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 255

15 Quantitative Analysis of Bile Acid with UHPLC-MS/MS. . . . . . . . . . . . . . . . . . . . 291

16 Sample Preparation and Data Analysis for NMR-Based Metabolomics . . . . . . . . . 301

Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 315