biostat0903 / pgsfusion

PGS construction and epidemiological application

PGSFusion streamlines polygenic score construction and epidemiological application in biobank scale cohort

Overview

We develop PGSFusion to perform polygenic score (PGS) construction and epidemiolgical application. PGSFusion accepted many different formats of summary statistics and implements a wide range of PGS methods, including single-trait, multiple-trait, annotation-based, and cross-ancestry methods. PGSFusion provided further epidemiological analysis: i) prediction performance evaluation; and ii) interaction identification.
The user can use the server to visit the website: http://www.pgsfusion.net/#/

PGSFusion pipeline

• Processing UKBB data
  We used UKBB data to build the validation set and test set. Two sets consist of 50,000 European indiciduals. Four methode, including CT, lassosum2, LDrped2 and DBSLMM, need validation set.
  
• PGS methods
  We integrated 16 PGS methods, including single-trait, multiple-trait, annotation-based and cross-ancestry methods.
  
• PGS application
  We provided two applications: i) prediction performance evaluation; ii) interaction analysis.
  

Update log

• Version 2.0 (May 2024)
  We update the PGSFusion in formating summary statistics and performing epidemiological applications
  
• Version 1.0 (Dec 2023)
  We first build the SRT-Server to streamline the PGS construction

Q&A

If there are any problems for PGSFusion, please feel free to ask here. We will ask you as soon as possible.

Citation

If you used our server, please cite the our paper:
Yang S, Ye X, Ji X, Li Z, Tian M, Huang P, and Cao C. PGSFusion streamlines polygenic score construction and epidemiological application in biobank scale cohort.