In this study led by Ruilin Li, we propose an extension of BASIL/snpnet alrogirhm to fit L1 penalized Cox proportional hazards model using a large-scale dataset from a genotyped cohort. We present its application to 300+ time-to-event traits in UK Biobank.
We provide the datasets related to this study.
polygenic hazard score
We provide the coefficients of the polygenic hazard score computed for the 306 time-to-event phenotypes in UK Biobank.
- R. Li, C. Chang, J. Justesen, Y. Tanigawa, J. Qian, T. J. Hastie, M. Rivas, R. Tibshirani, snpnet-Cox results (2020), doi:10.6084/m9.figshare.12368294.v1.
Citation: R. Li, C. Chang, J. M. Justesen, Y. Tanigawa, J. Qiang, T. Hastie, M. A. Rivas, R. Tibshirani, Fast Lasso method for large-scale and ultrahigh-dimensional Cox model with applications to UK Biobank. Biostatistics (2020). https://doi.org/doi:10.1093/biostatistics/kxaa038