eQTL analysis : methods and protocols
Author(s)
Bibliographic Information
eQTL analysis : methods and protocols
（Methods in molecular biology / John M. Walker, series editor, 2082）（Springer protocols）
Humana Press, c2020
- : [hardback]
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Includes bibliographical references and index
Description and Table of Contents
Description
This volume details state-of-art eQTL analysis, where interdisciplinary researchers are provided both theoretical and practical guidance to eQTL analysis and interpretation. Chapters guide readers through methods and tools for eQTL and QTL analysis and the usage of such analysis in various scenarios. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Authoritative and cutting-edge, eQTL Analysis: Methods and Protocols to ensure successful results in the further study of this vital field.
Table of Contents
Part I: Foundations
1. Introductory Methods for eQTL Analyses
Conor Nodzak
2. Performing QTL and eQTL Analyses with the R-package GenomicTools
Daniel Fischer
3. eQTL Mapping using Transcription Factor Affinity
Elisa Mariella, Elena Grassi, and Paolo Provero
4. Identification and Quantification of Splicing Quantitative Trait Loci
Ankeeta Shah and Yang I. Li
5. Genome-wide Composite Interval Mapping (GCIM) of Expressional Quantitative Trait Loci in Backcross Population
Yuan-Ming Zhang
6. Combining eQTL and SNP Annotation Data to Identify Functional Noncoding SNPs in GWAS Trait-associated Regions
Stephen A. Ramsey, Zheng Liu, Yao Yao, and Benjamin Weeder
7. Statistical and Machine Learning Methods for eQTL Analysis
Junjie Chen and Conor Nodzak
8. Sparse Regression Models for Unraveling Group and Individual Associations in eQTL Mapping
Wei Cheng, Xiang Zhang, and Wei Wang
9. Exploring Bayesian Approaches to eQTL Mapping through
Probabilistic Programming
Dimitrios V. Vavoulis
10. High-order Association Mapping for Expression Quantitative Trait Loci
Huaizhen Qin, Weiwei Ouyang, and Jinying Zhao
11. Integration of Multi-omics Data for Expression Quantitative Trait Loci (eQTL) Analysis and eQTL Epistasis
Mingon Kang and Jean Gao
12. Sparse Partial Least Squares Methods for Joint Modular Pattern Discovery
Jinyu Chen and Shihua Zhang
Part II: Applications
13. Expression Quantitative Trait Loci (eQTL) Analysis in Cancer
Yaoming Liu, Youqiong Ye, Jing Gong, and Leng Han
14. QTL Analysis Beyond eQTLs
Jia Wen and Conor Nodzak
15. Quantitative Trait Loci (QTL) Mapping
Kara E. Powder
16. Expression Quantitative Trait Loci Analysis in Multiple Tissues Gen Li
17. Tissue Specific eQTL in Zebrafish
Kimberly Dobrinski
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