Part I. Setting Up Mapping Populations
1. Backcross Populations and Near Isogenic Lines
Rik Kooke, Erik Wijnker and Joost. J.B. Keurentjes
2. F2 Designs for QTL Analysis
Yuan-Ming Zhang
3. Design and Construction of Recombinant Inbred Lines
Daniel A. Pollard
4. Two Flavors of Bulk Segregant Analysis in Yeast
Maitreya J. Dunham
5. Selecting Markers and Evaluating Coverage
Matthew A. Cleveland and Nader Deeb
Part II. Identifying Quantitative Trait Loci
6. Composite Interval Mapping and Multiple Interval Mapping: Procedures and Guidelines for Using Windows QTL Cartographer
Luciano Da Costa E Silva, Shengchu Wang, and Zhao-Bang Zen
7. Design Database for Quantitative Trait Loci (QTL) Data Warehouse, Data Mining and Meta Analysis
Zhi-Liang Hu, James M Reecy and Xiao-Lin Wu
8. Meta-Analysis of QTL Mapping Experiments
Xiao-Lin Wu and Zhi-Liang Hu
Part III. Extending the Power of Quantitative Train Locus Analysis
9. Using eQTLs to Reconstruct Gene Regulatory Networks
Lin S. Chen
10. Estimation and Interpretation of Genetic Effects with Epistasis using the NOIA Model
José M Álvarez-Castro, Örjan Carlborg and Lars Rönnegård
11. Identifying QTL for Multiple Complex Traits in Experimental Crosses
Samprit Banerjee and Nengjun Yi
12. Functional Mapping of Developmental Processes: Theory, Applications and Prospects
Kiranmoy Das, Zhongwen Huang, Jingyuan Liu, Guifang Fu, Jiahan Li, Yao Li, Chunfa Tong, Junyi Gai and Rongling Wu
13. Statistical Models for Genetic Mapping in Polyploids: Challenges and Opportunities
Jiahan Li, Kiranmoy Das, Guifang Fu, Yao Li, Christian Tobias and Rongling Wu
Part IV. Case Studies
14. eQTL
Lun Li, Xianghua Zhang and Hongyu Zhao
15. Genetic Mapping of Quantitative Trait Loci for Disease-Related Phenotyples
Marcella Devoto and Mario Falchi
16. Quantitative Trait Locus Analysis in Haplodiploid Hymenoptera
Jürgen Gadau, Christof Pietsch, Leo W Beukeboom
