Madison Mehlferber

LRP2 is a proteogenomics pipeline that integrates long-read RNA sequencing and mass spectrometry to detect novel protein isoforms and improve their translation inference.

This study benchmarks PacBio Kinnex long-read RNA sequencing against Illumina short-read RNA-seq, finding Kinnex provides more accurate transcript discovery and quantification with comparable gene-level performance.

This paper introduces JOLI, a hierarchical model that improves RNA isoform quantification by integrating short-read and long-read data across multiple samples.

The paper uses long-read proteogenomics to characterize protein isoform diversity in HUVECs, identifying novel transcripts and isoforms with potential functional implications.

This paper develops a CRISPR-Cas9 method for efficient gene knockout in mouse salivary gland epithelial explants, demonstrating effective gene perturbation and its impact on branching morphogenesis.