Tod D. Casasent

This study uses single-nucleus RNA-seq to analyze RCC brain metastases, identifying immune evasion mechanisms and metabolic adaptations that contribute to resistance to therapy.

The paper identifies tetrads as a multicellular immune unit that correlates with antitumor immunity and response to checkpoint blockade in mouse and human tumors.

PCA-Plus enhances principal component analysis to better detect, visualize, and quantify batch effects and group differences in multi-omic data.

This paper constructs a comprehensive spatially resolved single-cell genomic atlas of the adult human breast, identifying 11 major cell types and revealing diverse immune and epithelial cell populations.

The paper uses genomic profiling to show that some invasive breast cancers are clonally unrelated to their preceding DCIS, suggesting DCIS may act as both a precursor and independent risk factor.

CopyKit is a computational tool that resolves clonal substructure and reconstructs genetic lineages in tumors using single cell copy number data.