# Stem Cell-Based Therapies in Autoimmune Diseases: Current Evidence, Unmet Needs, and Future Directions—A Closing Editorial Review

**Authors:** Györgyi Műzes, Ferenc Sipos

PMC · DOI: 10.3390/cells15040328 · 2026-02-11

## TL;DR

Stem cell therapies offer a promising alternative to traditional treatments for autoimmune diseases by aiming to restore immune balance rather than just suppress it.

## Contribution

This editorial review highlights the distinction between immune reset and immune modulation in stem cell therapies and identifies key challenges and future directions.

## Key findings

- Stem cell therapies, such as hematopoietic stem cell transplantation and mesenchymal stromal cells, show potential for treating autoimmune diseases.
- Persistent issues like incomplete immune reconstitution and lack of predictive biomarkers remain significant challenges.
- Future directions include standardization, biomarker-driven patient selection, and next-generation techniques like extracellular vesicles.

## Abstract

The long-lasting, varied, and complicated nature of immune system issues in autoimmune disorders continues to make treatment difficult. Although standard immunosuppressive and biologic therapies have enhanced disease management, they infrequently provide enduring remission and often result in cumulative damage. Due to this, stem cell treatment has emerged as a potential alternative that aims to restore immunological homeostasis rather than maintain long-term immune suppression. This editorial review provides a comprehensive overview of the current evidence, unmet requirements, and future directions in the field, summarizing the primary contributions of the Special Issue “Stem Cell Therapy for Autoimmune Diseases”. We examine the conceptual distinction between immune reset, as demonstrated by hematopoietic stem cell transplantation, and immune modulation, which is facilitated by mesenchymal stromal cells and their secretome. Systemic sclerosis, neuroimmunological disorders, inflammatory bowel disease, and type 1 diabetes exhibit disease-specific clinical experiences that underscore both context-dependent limitations and therapeutic potential. Meanwhile, an urgent need to address persistent issues such as incomplete immune reconstitution, autoreactive memory cell-driven relapse, a lack of predictive biomarkers, safety concerns, and complex ethical and regulatory problems is addressed. This review concludes by offering perspectives on the future development of this approach, highlighting standardization, biomarker-driven patient selection, and next-generation techniques, including extracellular vesicles and genetically modified cells. This overview marks stem cell therapy as a crucial area of research for the treatment of autoimmune disorders.

## Linked entities

- **Diseases:** systemic sclerosis (MONDO:0005100), inflammatory bowel disease (MONDO:0005265), type 1 diabetes (MONDO:0005147)

## Full-text entities

- **Genes:** FOXP3 (forkhead box P3) [NCBI Gene 50943] {aka AIID, DIETER, IPEX, JM2, PIDX, XPID}, GATA3 (GATA binding protein 3) [NCBI Gene 2625] {aka HDR, HDRS}, IL10 (interleukin 10) [NCBI Gene 3586] {aka CSIF, GVHDS, IL-10, IL10A, TGIF}, IFNG (interferon gamma) [NCBI Gene 3458] {aka IFG, IFI, IMD69}
- **Diseases:** Systemic sclerosis (MESH:D012595), neuroimmunological disorders (MESH:D009358), ADs (MESH:D001327), malignancy (MESH:D009369), injury to (MESH:D014947), inflammatory (MESH:D007249), fractures (MESH:D050723), immune dysregulation (OMIM:614878), Neuroimmunological illnesses (MESH:D002908), inflammatory bowel disease (MESH:D015212), type 1 diabetes (MESH:D003922), Crohn's disease (MESH:D003424), infection (MESH:D007239), juvenile idiopathic arthritis (MESH:D001171), toxicity (MESH:D064420), Tumorigenicity (MESH:D002471)
- **Chemicals:** cyclophosphamide (MESH:D003520)
- **Species:** Homo sapiens (human, species) [taxon 9606]

---
Source: https://tomesphere.com/paper/PMC12939817