Nicholas C. Borcherding

This study identifies that T cell receptors from CD8 regulatory T cells direct the development of natural intraepithelial lymphocytes, challenging the role of Helios as a lineage-determining factor.

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.

This study identifies distinct roles of MSH2 and MLH1 in basal-like breast cancer, showing MSH2 promotes metastasis while MLH1 enhances it, and reveals MSH2's role in immune modulation through IFNAR1 regulation.

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.

This study identifies a synergistic relationship between PHF8 and HER2 signaling in breast cancer, showing PHF8 promotes HER2 expression and drug resistance.

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.