Stephanie D. Conley

Mapping the regulatory wiring of endothelial cell differentiation reveals a critical role for Hippo mechanosignaling

The paper maps gene regulators of endothelial cell differentiation using CRISPR and single-cell RNA-seq, identifying Hippo mechanosignaling as critical for endothelial identity.

PantheonOS: An Evolvable Multi-Agent Framework for Automatic Genomics Discovery

PantheonOS introduces a multi-agent framework for automated genomics analysis, achieving super-human performance in batch correction and gene panel selection across diverse biological tasks.

Interpreting variants associated with congenital heart disease with a regulatory map of the human fetal heart

This study creates a gene regulation map of the human fetal heart to interpret genetic variants associated with congenital heart disease and cardiac traits, identifying valvular interstitial cells as key regulators.

Molecular hallmarks of heterochronic parabiosis at single cell resolution

This study uses single-cell RNA-sequencing to analyze cell type-specific responses to young or aged blood in heterochronic parabiosis, identifying mitochondrial function as a key factor in rejuvenation.

A molecular cell atlas of the human lung from single cell RNA sequencing

The paper creates a comprehensive molecular cell atlas of the human lung using single-cell RNA sequencing, identifying 58 cell populations including 14 new types and revealing evolutionary changes in lung cell types.

Single-cell transcriptomic characterization of 20 organs and tissues from individual mice creates a Tabula Muris

The paper creates a single-cell transcriptomic atlas of 20 mouse organs and tissues, providing a resource for studying gene expression across cell types.

Index Switching Causes "Spreading-Of-Signal" Among Multiplexed Samples In Illumina HiSeq 4000 DNA Sequencing

On patterned flow cells using exclusion amplification, up to 5-10% of reads are credited to the wrong sample in a pool, traced to free index primers surviving library cleanup.