Noa Phillips

Integrated inference of cancer gene expression from cell-free plasma chromatin

APEX infers cancer gene expression from plasma cfChIP-seq data, outperforming existing methods and enabling subtype classification and biomarker identification.

Detection and monitoring of translocation renal cell carcinoma via plasma cell-free epigenomic profiling

This paper detects and monitors translocation renal cell carcinoma (tRCC) using plasma cell-free epigenomic profiling, achieving high accuracy in distinguishing tRCC from other cancers and healthy controls.

SNAP: Streamlined Nextflow Analysis Pipeline for Immunoprecipitation-Based Epigenomic Profiling of Circulating Chromatin

SNAP improves classification performance for cell-free chromatin data while maintaining data retention through optimized quality filters and modular design.