Nicholas C. Borcherding

This study integrates a large scRNA-seq dataset of CTCL to identify molecular subtypes and microenvironmental changes with clinical relevance.

The paper identifies a broader pathogenic T cell receptor motif linked to HLA-B*27-associated autoimmune diseases and shows these T cells express a Type 17 program.

This study uses scRNA-seq to identify novel immune subsets and checkpoint programs in healthy dogs, revealing functional roles of immune regulators.

R package rebuild for single-cell T/B cell receptor analysis: Rcpp rewrites reportedly make clonal pairing and edit-distance clustering scale linearly; adds auto-detected multi-format import, AIRR-compatible export, CDR3 summaries.

This study tracks clonal evolution in cutaneous T-cell lymphoma using multi-omics data to identify progression-associated mutations and potential therapeutic targets.

dandelionR provides an R implementation of Dandelion's workflow for analyzing single-cell RNA and immune receptor sequencing data.

The paper identifies a subset of CD8+ TILs in HPV-HNSCC enriched for interferon-stimulated genes that are transcriptionally inert to TCR stimulation and may hinder T-cell differentiation.

The paper identifies epithelial IL-2 as critical for maintaining NK cell function in mammary glands, leading to improved immunosurveillance and prevention of tumor development.

Ibex vectorizes BCR sequences for dimensional reduction and integrates into single-cell analysis workflows.

This study shows that AP-2γ is essential for maintaining pluripotent mammary stem cells and their ability to form mammary gland structures.

The paper identifies transcriptional subtypes of tumor-infiltrating regulatory T cells and shows that a CD177+ subset predicts poorer survival in renal clear cell carcinoma and other cancers.