eQTL Analysis: Methods and Protocols

✍ Scribed by Xinghua Mindy Shi

Publisher: Springer US;Humana
Year: 2020
Tongue: English
Leaves: 252
Series: Methods in Molecular Biology 2082
Edition: 1st ed. 2020
Category: Library

No coin nor oath required. For personal study only.

✦ Synopsis

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

Front Matter ....Pages i-x
Front Matter ....Pages 1-1
Introductory Methods for eQTL Analyses (Conor Nodzak)....Pages 3-14
Performing QTL and eQTL Analyses with the R-Package GenomicTools (Daniel Fischer)....Pages 15-38
eQTL Mapping Using Transcription Factor Affinity (Elisa Mariella, Elena Grassi, Paolo Provero)....Pages 39-49
Identification and Quantification of Splicing Quantitative Trait Loci (Ankeeta Shah, Yang I. Li)....Pages 51-62
Genome-Wide Composite Interval Mapping (GCIM) of Expressional Quantitative Trait Loci in Backcross Population (Yuan-Ming Zhang)....Pages 63-71
Combining eQTL and SNP Annotation Data to Identify Functional Noncoding SNPs in GWAS Trait-Associated Regions (Stephen A. Ramsey, Zheng Liu, Yao Yao, Benjamin Weeder)....Pages 73-86
Statistical and Machine Learning Methods for eQTL Analysis (Junjie Chen, Conor Nodzak)....Pages 87-104
Sparse Regression Models for Unraveling Group and Individual Associations in eQTL Mapping (Wei Cheng, Xiang Zhang, Wei Wang)....Pages 105-121
Exploring Bayesian Approaches to eQTL Mapping Through Probabilistic Programming (Dimitrios V. Vavoulis)....Pages 123-146
High-Order Association Mapping for Expression Quantitative Trait Loci (Huaizhen Qin, Weiwei Ouyang, Jinying Zhao)....Pages 147-155
Integration of Multi-omics Data for Expression Quantitative Trait Loci (eQTL) Analysis and eQTL Epistasis (Mingon Kang, Jean Gao)....Pages 157-171
Sparse Partial Least Squares Methods for Joint Modular Pattern Discovery (Jinyu Chen, Shihua Zhang)....Pages 173-186
Front Matter ....Pages 187-187
Expression Quantitative Trait Loci (eQTL) Analysis in Cancer (Yaoming Liu, Youqiong Ye, Jing Gong, Leng Han)....Pages 189-199
QTL Analysis Beyond eQTLs (Jia Wen, Conor Nodzak, Xinghua Shi)....Pages 201-210
Quantitative Trait Loci (QTL) Mapping (Kara E. Powder)....Pages 211-229
Expression Quantitative Trait Loci Analysis in Multiple Tissues (Gen Li)....Pages 231-237
Tissue-Specific eQTL in Zebrafish (Kimberly P. Dobrinski)....Pages 239-249
Back Matter ....Pages 251-252

✦ Subjects

Life Sciences; Bioinformatics; Genetics and Genomics

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