LDpred-funct

Offers an approach dedicated to polygenic forecasting. LDpred-funct is an algorithm based on the leveraging of trait-specific functional enrichments and that performs an additional regularization step to account for sparsity. This method can be used to perform simulations with real genotypes. It was experimentally applied to UK Biobank and 23andMe cohorts to predict height through a meta-analysis.

LDpred-funct specifications

Algorithm

Information

Unique identifier	OMICS_31418
Name	LDpred-funct

Maintainers

This tool is not maintained anymore.

Publication for LDpred-funct

Modeling functional enrichment improves polygenic prediction accuracy in UK Biobank and 23andMe data sets.

2018 BioRxiv

DOI: 10.1101/375337

LDpred-funct institution(s)

Department of Biostatistics, Harvard School of Public Health, Boston, MA, USA; Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA, USA; Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA; Division of Genetics, Department of Medicine, Brigham and Women’s Hospital and Harvard Medical School, Boston, MA, USA; 23andMe Inc., Mountain View, CA, USA

LDpred-funct funding source(s)

Supported by NIH grants R01 GM105857, R01 MH101244 and U01 HG009379.

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