K.-L. Hong

Multimodal single-cell profiling of T cell specificity and reactivity in lung cancer

This study uses multimodal single-cell profiling to analyze T cell specificity and reactivity in lung cancer patients, identifying tumor- and virus-reactive T cells and their functional states.

ePlatypus: an ecosystem for computational analysis of immunogenomics data

ePlatypus provides a computational ecosystem for immunogenomics data analysis, integrating diverse modalities and tools to study adaptive immunity and computational immunology.

Persistent virus-specific and clonally expanded antibody secreting cells respond to induced self antigen in the CNS

The paper identifies virus-specific, clonally expanded antibody-secreting cells in the CNS that persist and respond to induced self-antigen, with parallels in multiple sclerosis patients.

Single-cell immune repertoire sequencing of B and T cells in murine models of infection and autoimmunity

The paper profiles clonal selection of B and T cells in murine models of infection and autoimmunity using single-cell sequencing, linking repertoire features to cell phenotypes.

Generation of a single-cell B cell atlas of antibody repertoires and transcriptomes to identify signatures associated with antigen-specificity

The paper generates a single-cell B cell atlas to link antibody repertoires, transcriptomes, and antigen specificity in murine immunization models.

Echidna: integrated simulations of single-cell immune receptor repertoires and transcriptomes

Echidna simulates single-cell immune receptor repertoires and transcriptomes, enabling benchmarking of clonotyping and phylogenetic analysis tools.

Clonally expanded virus-specific CD8 T cells acquire diverse transcriptional phenotypes during acute, chronic, and latent infections

This study examines clonal expansion and transcriptional diversity in virus-specific CD8 T cells across different infection stages using single-cell sequencing and a new bioinformatic tool.

Single-cell sequencing of plasma cells from COVID-19 patients reveals highly expanded clonal lineages produce specific and neutralizing antibodies to SARS-CoV-2

Single-cell sequencing and screening identify expanded plasma cell clones in COVID-19 patients producing SARS-CoV-2-specific neutralizing antibodies.

Single-cell sequencing reveals clonally expanded plasma cells during chronic viral infection produce virus-specific and cross-reactive antibodies