Single-cell analysis in rheumatic and allergic diseases: insights for clinical practice

M Nishide, H Shimagami, A Kumanogoh - Nature Reviews Immunology, 2024‏ - nature.com
Since the advent of single-cell RNA sequencing (scRNA-seq) methodology, single-cell
analysis has become a powerful tool for exploration of cellular networks and dysregulated …

Coordinated immune cell networks in the bone marrow microenvironment define the graft versus leukemia response with adoptive cellular therapy

A Maurer, CY Park, S Mani, M Borji, C Shin, L Penter… - Blood, 2023‏ - ashpublications.org
Donor lymphocyte infusion (DLI) is an established therapy for relapsed acute myeloid
leukemia (AML) after hematopoietic stem cell transplant (HSCT), but response rates are …

Coordinated immune networks in leukemia bone marrow microenvironments distinguish response to cellular therapy

K Maurer, CY Park, S Mani, M Borji, F Raths… - Science …, 2025‏ - science.org
Understanding how intratumoral immune populations coordinate antitumor responses after
therapy can guide treatment prioritization. We systematically analyzed an established …

T cell receptor–centric perspective to multimodal single-cell data analysis

KA Mullan, M Ha, S Valkiers, N de Vrij, B Ogunjimi… - Science …, 2024‏ - science.org
The T cell receptor (TCR), despite its importance, is underutilized in single-cell analysis, with
gene expression features solely driving current strategies. Here, we argue for a TCR-first …

Single cell RNA-sequencing of feline peripheral immune cells with V (D) J repertoire and cross species analysis of T lymphocytes

R Ramarapu, JM Wulcan, H Chang, PF Moore… - Frontiers in …, 2024‏ - frontiersin.org
Introduction The domestic cat (Felis catus) is a valued companion animal and a model for
virally induced cancers and immunodeficiencies. However, species-specific limitations such …

[HTML][HTML] Systematic analysis of human colorectal cancer scRNA-seq revealed limited pro-tumoral IL-17 production potential in gamma delta T cells

R Ran, M Trapecar, DK Brubaker - Neoplasia, 2024‏ - Elsevier
Gamma delta T cells play a crucial role in anti-tumor immunity due to their cytotoxic
properties. However, the role and extent of γδ T cells in production of pro-tumorigenic …

STEGO. R: an application to aid in scRNA-seq and scTCR-seq processing and analysis

KA Mullan, M Ha, S Valkiers, B Ogunjimi, K Laukens… - bioRxiv, 2023‏ - biorxiv.org
Introduction The hypervariable T cell receptor (TCR), created through somatic
recombination, allows for recognition of a diverse array of antigens. Single sequencing …

IMMClock reveals immune aging and T cell function at single-cell resolution

YG Schmidt, D Wu, S Madan, S Sinha, S Sahni… - bioRxiv, 2024‏ - biorxiv.org
The aging of the immune system substantially impacts individual immune responses, yet
accurately quantifying immune age remains a complex challenge. Here we developed …

Multi-omic single-cell integration for understanding T cell responses in Acute Myeloid Leukemia

P Desai - 2024‏ - digitalcommons.library.tmc.edu
In recent years, translational initiatives have gained significant traction within the medical
community. Clinical parameters alone have been insufficient to fully understand the intricate …

Using single-cell RNA sequencing to elucidate the biological basis of IBD and response to therapy

H Banks - 2025‏ - repository.cam.ac.uk
Inflammatory bowel disease (IBD) is an umbrella term for disorders involving chronic
inflammation of the gastrointestinal tract, with over 6 million cases reported worldwide. 320 …