A homology model of the SpeB-processed form of CXCL9 was generated using Multiple Mapping Method with Multiple Templates (M4T) (http://www.fiserlab.org/servers/m4t) [44] using a NAP-2/CXCL7 variant (PDB 1TVX) [45] as a template.
xQTL workbench provides visualization of QTL profiles, single and multiple QTL mapping methods, easy addition of new QTL analyses, scalable data management and analysis tracking.
Two linkage maps were developed and six QTLs were identified on five chromosomes (1, 3, 4, 7 and 8) in the BC1 population by means of the Interval Mapping and restricted Multiple QTL Mapping methods.
Multiple-QTL mapping methods could readily be applied to each such parameter, individually.
The qtl library (Broman et al. 2003) within the R statistical software (www.r-project.org/) was used to search for and characterize significant loci linked to the markers using multiple-QTL mapping methods.
Epistatic QTLs were identified using multiple interval mapping method by scan through QTL mapping file model by setting threshold LOD value of CIM for that trait and 5 cM minimum distance between two QTLs for considering interaction effects and the results pertaining to interacting/epistatic QTLs which explained more than 5% phenotypic variation are reported.
This study demonstrates that the scaling laws are suitable to serve as sub-grid scale models for mixture fraction based approaches such as flamelet, conditional moment closure (CMC) or multiple mapping conditioning (MMC) methods.
Based on the phenotype and marker genotype data, we implemented the multiple-interval mapping method for a preliminary genome-wide scan for QTL affecting the multiple categorical phenotype of cell aggregation.
Putative QTLs controlling fruit morphological traits (i.e., FW, FL, FD, FT, ND, and NW) and powdery mildew resistance were mapped to the linkage map using R/qtl, based on the Haley Knott regression method with 1 cM intervals, and the multiple-interval mapping method (Kao et al. 1999) for model selection.
Sillanpää et al. (2012) proposed another Bayesian multiple-QTL mapping method based on hierarchical modeling.
