Translational Bioinformatics for Therapeutic Development

Front Matter ....Pages i-xv
 Development and Optimization of Clinical Informatics Infrastructure to Support Bioinformatics at an Oncology Center  (Randa M. Perkins, Joseph Markowitz)....Pages 1-19
 Leveraging Pathology Informatics Concepts to Achieve Discrete Lab Data for Clinical Use and Translational Research  (Mandy Flannery O’Leary)....Pages 21-33
 Cohort Identification for Translational Bioinformatics Studies  (Tiffany A. Lin, Zeynep Eroglu, Rodrigo Carvajal, Joseph Markowitz)....Pages 35-44
 Transitioning Clinical Practice Guidelines into the Electronic Health Record through Clinical Pathways  (Sharjeel M. Hooda, Karen K. Fields)....Pages 45-59
 Variable Selection for Time-to-Event Data  (Ai Ni, Chi Song)....Pages 61-76
 Binary Classification for Failure Risk Assessment  (Ali Foroughi Pour, Ian Loveless, Grzegorz Rempala, Maciej Pietrzak)....Pages 77-105
 Challenges and Opportunities of Genomic Approaches in Therapeutics Development  (Jaimie S. Gray, Moray J. Campbell)....Pages 107-126
 Accessible Pipeline for Translational Research Using TCGA: Examples of Relating Gene Mechanism to Disease-Specific Outcomes  (Anders E. Berglund, Ryan M. Putney, Jordan H. Creed, Garrick Aden-Buie, Travis A. Gerke, Robert J. Rounbehler)....Pages 127-142
 Statistical and Bioinformatics Analysis of Data from Bulk and Single-Cell RNA Sequencing Experiments  (Xiaoqing Yu, Farnoosh Abbas-Aghababazadeh, Y. Ann Chen, Brooke L. Fridley)....Pages 143-175
 Investigating Inter- and Intrasample Diversity of Single-Cell RNA Sequencing Datasets  (Meghan C. Ferrall-Fairbanks, Philipp M. Altrock)....Pages 177-186
 Managing a Large-Scale Multiomics Project: A Team Science Case Study in Proteogenomics  (Paul A. Stewart, Eric A. Welsh, Bin Fang, Victoria Izumi, Tania Mesa, Chaomei Zhang et al.)....Pages 187-221
 Synergistic Drug Combination Prediction by Integrating Multiomics Data in Deep Learning Models  (Tianyu Zhang, Liwei Zhang, Philip R. O. Payne, Fuhai Li)....Pages 223-238
 Introduction to Multiparametric Flow Cytometry and Analysis of High-Dimensional Data  (James Sun, Jodi L. Kroeger, Joseph Markowitz)....Pages 239-253
 High-Dimensional Flow Cytometry Analysis of Regulatory Receptors on Human T Cells, NK Cells, and NKT Cells  (Ryosuke Nakagawa, Jason Brayer, Nicole Restrepo, James J. Mulé, Adam W. Mailloux)....Pages 255-290
 Quantitative Analysis of Bile Acid with UHPLC-MS/MS  (Yuan Tian, Jingwei Cai, Erik L. Allman, Philip B. Smith, Andrew D. Patterson)....Pages 291-300
 Sample Preparation and Data Analysis for NMR-Based Metabolomics  (Tapas K. Mal, Yuan Tian, Andrew D. Patterson)....Pages 301-313
 Correction to: Development and Optimization of Clinical Informatics Infrastructure to Support Bioinformatics at an Oncology Center  (Randa M. Perkins, Joseph Markowitz)....Pages C1-C1
Back Matter ....Pages 315-317