Shawn Shafer

Network-aware self-supervised learning enables high-content phenotypic screening for genetic modifiers of neuronal activity dynamics

The paper introduces Plexus, a self-supervised model for capturing neuronal activity dynamics, and demonstrates its effectiveness in identifying genetic modifiers of neuronal activity in frontotemporal dementia.

Simultaneous single-cell CRISPR, RNA, and ATAC-seq enables multiomic CRISPR screens to identify gene regulatory relationships

The paper introduces CAT-ATAC, a method combining CRISPR, RNA, and ATAC-seq in single cells to identify gene regulatory relationships and validate them with loss-of-function experiments.

SAMHD1 Knockout iPSC model enables high lenti-viral transduction in myeloid cell types

The paper develops a SAMHD1 knockout iPSC model that enhances lentiviral transduction efficiency in myeloid cells, enabling better functional genomics studies in innate immunity and inflammatory diseases.

Variants in tubule epithelial regulatory elements mediate most heritable differences in human kidney function

This paper identifies genetic variants in tubule epithelial regulatory elements that explain most heritable differences in human kidney function using GWAS, scATAC-seq, and functional assays.

Optimized CRISPR guide RNA library cloning reduces skew and enables more compact genetic screens

This paper optimizes CRISPR guide RNA library cloning to reduce bias and enables more compact genetic screens with equivalent results using fewer cells.