Jeffrey M. Trent

The paper develops a pipeline for protein-level cell annotation in human PBMCs using mass spectrometry-based single-cell proteomics and validates it on unsorted samples.

The paper shows that clinically relevant leukemia phenotypes emerge at the macrostate level from single cell data, revealing how disease states aggregate from noisy single cell transcriptomes.

Analyzing the positioning and nucleotide sequence at fragment ends in plasma DNA may enable cancer diagnostics.

The paper establishes reference samples with high-coverage whole-genome sequencing to create truth sets for somatic mutation and germline variant detection using NGS technologies.

This study demonstrates the feasibility of ctDNA analysis in dogs with hemangiosarcoma using shallow whole genome sequencing, showing higher ctDNA fractions in malignant tumors compared to benign ones.

Bisbee detects differential splicing and identifies splice outliers with improved sensitivity and specificity using proteomics validated methods.

The paper evaluates pre-analytical factors affecting plasma DNA analysis by comparing DNA extraction methods and blood collection tubes using a multiplexed ddPCR assay.