Welles Robinson

This paper introduces DETOPT, a method for accurately placing SNVs affected by CNAs in tumor progression trees, showing improved accuracy on simulated data and biologically plausible results on breast cancer metastases.

CAMMiQ improves microbial strain-level detection and quantification in single-cell metagenomics by using combinatorial optimization and doubly-unique substrings, outperforming existing methods in accuracy.

Trisicell infers subclonal expansion patterns and therapeutic impact of intratumor heterogeneity from scRNAseq data, revealing correlations between mutational composition and tumor aggressiveness.

The paper develops CODEFACS and LIRICS to deconvolve bulk gene expression and identify clinically relevant ligand-receptor interactions in tumors, finding specific T-cell interactions linked to anti-PD1 response.

The paper identifies functional pathways associated with mutational signatures in breast cancer, revealing differences in the etiology of APOBEC and clock-like signatures.