Erin D. Jeffery

This study uses genetics-guided targeted mass spectrometry to detect protein isoforms associated with bone mineral density, confirming their expression in clinical samples.

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 investigates the role of SEPT9 in intestinal epithelial barrier integrity and inflammation, finding that its loss disrupts tight junctions and increases susceptibility to colitis.

The paper develops a CRISPR/Cas13d-based method to specifically knockdown RNA isoforms and provides computational tools for experimental design and analysis.

This study evaluates the Platinum sequencer's ability to detect proteoform-informative peptides, distinguishing TPM1/TPM2 paralogs, spliceforms, and PTMs.

This study uses Orbitrap Astral mass spectrometry with TMT to analyze proteomic changes in mouse brain and kidney tissues across age and sex, revealing tissue-specific and non-linear age-related protein dynamics.

This paper connects disease-associated splicing QTLs to protein isoform effects using long-read RNA-seq and GWAS data in osteoblasts.

The paper introduces LRP-IS-PRM, a method using long-read RNAseq to inform targeted proteomics with IS-PRM, identifying five new protein isoforms in human stem cells.

IsoBayes infers protein isoform presence and abundance using Bayesian methods integrating proteomics and transcriptomics data, showing good sensitivity and specificity in simulations and real datasets.

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

This study shows that endothelial cell cycle states determine arterial-venous fate, with early G1 for venous and late G1 for arterial specification.