Excited about our new preprint: we asked whether genomic foundation models (GFMs) can boost common variant discovery in GWAS beyond standard functional annotations. Across 27 UK Biobank traits: not yet. Paper below! doi.org/10.64898/202...

Happy to see this out w/ @epsteinstatgen.bsky.social and @davecutler.bsky.social (paper: doi.org/10.1093/bioi...)! We tackled the problem of identifying dysregulated pathways (i.e. differentially co-expressed) in gene expression studies. We show that differential co-expression arises ...

Excited to see our (w/ @chr1sw.bsky.social) work published in @natcomputsci.nature.com! We developed a new framework, surrogate functional false discovery rate (sffdr), that integrates summary statistics of related traits to improve power in GWASs. Paper: www.nature.com/articles/s43...

Exploiting pleiotropy to enhance variant discovery with functional false discovery rates - Nature Computational Science

This study introduces a cost-effective strategy called surrogate functional false discovery rates to increase power in genome-wide association studies by leveraging genetic correlations (or pleiotropy...

nature.com

Differential co-expression arises from shared unmodeled biological variation involving an observed risk factor and an unobserved (or latent) factor. We developed a method to detect such variation in a pathway for general gene expression studies!

bioRxiv Bioinfo@biorxiv-bioinfo.bsky.social · 2y ago

A powerful framework for differential co-expression analysis of general risk factors https://www.biorxiv.org/content/10.1101/2024.11.29.626006v1

New work with @chr1sw.bsky.social on increasing GWAS power by leveraging summary statistics of related traits! Package available at github.com/ajbass/sffdr.

medRxivpreprint@medrxivpreprint.bsky.social · 2y ago

Exploiting pleiotropy to enhance variant discovery with functional false discovery rates https://www.medrxiv.org/content/10.1101/2024.09.24.24314276v1

New publication from @epsteinstatgen.bsky.social's crew describing LIT; a kernel method to map genetic variants with interaction effects on multiple phenotypes in biobanks - in Genome Medicine genomemedicine.biomedcentral.com/articles/10....

Identifying latent genetic interactions in genome-wide association studies using multiple traits - Genome Medicine

The "missing" heritability of complex traits may be partly explained by genetic variants interacting with other genes or environments that are difficult to specify, observe, and detect. We propose a n...

genomemedicine.biomedcentral.com

A preprint of my first post-doc paper w/ Shijia Bian, Aliza Wingo, Thomas Wingo, David Cutler and @epsteinstatgen.bsky.social is out! www.biorxiv.org/content/10.1...

Identifying latent genetic interactions in genome-wide association studies using multiple traits

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