eQTL analysis : methods and protocols / edited by Xinghua Mindy Shi. -- New York : Humana Press, 2020. – (58.17/M592/v.2082)

Contents

Preface

Contributors

PART I  FOUNDATIONS

1  Introductory Methods for eQTL Analyses

2  Performing QTL and eQTL Analyses with the R-Package Genomic Tools

3  eQTL Mapping Using Transcription Factor Affinity

4  Identification and Quantification of Splicing Quantitative Trait Loci

5  Genome-Wide Composite Interval Mapping (GCIM) of Expressional Quantitative Trait Loci in Backcross Population

6  Combining eQTL and SNP Annotation Data to Identify Functional Noncoding SNPs in GWAS Trait-Associated Regions

7  Statistical and Machine Learning Methods for eQTL Analysis

8  Sparse Regression Models for Unraveling Group and Individual Associations in eQTL Mapping

9  Exploring Bayesian Approaches to eQTL Mapping Through Probabilistic Programming

10  High-Order Association Mapping for Expression Quantitative Trait Loci

11  Integration of Multi-omics Data for Expression Quantitative Trait Loci (eQTL) Analysis and eQTL Epistasis

12  Sparse Partial Least Squares Methods for Joint Modular Pattern Discovery

PART II  APPLICATIONS

13  Expression Quantitative Trait Loci (eQTL) Analysis in Cancer

14  QTL Analysis Beyond eQTLs

15  Quantitative Trait Loci (QTL) Mapping

16  Expression Quantitative Trait Loci Analysis in Multiple Tissues

17  Tissue-Specific eQTL in Zebrafish

Index