Table of Contents
Multi-trait assisted Polygenic Scores (mtPGS) is a statistical method that leverages multiple traits to construct accurate polygenic scores (PGS) for a target trait of interest. mtPGS borrows SNP effect size similarity information between the target trait and its relevant traits to improve the effect size estimation on the target trait. In the process, mtPGS flexibly models the shared genetic architecture between the target and the relevant traits to achieve robust performance, while explicitly accounting for the environmental covariance among them to accommodate different study designs with various sample overlap patterns. In addition, mtPGS uses only summary statistics as input and relies on a deterministic algorithm with several algebraic techniques for scalable computation. The software is distributed under the GNU General Public License.
Citation #
Chang Xu, Santhi K. Ganesh, and Xiang Zhou (2023). mtPGS: Leverage multiple correlated traits for accurate polygenic score construction. The American Journal of Human Genetics. 110: 1673–1689.
Contact #
if you have any questions on mtPGS software, please feel free to leave messages on the github issues or contact me through email: xuchang@umich.edu