Abstract
Allogeneic Hematopoietic Cell Transplant (HCT) offers potential cure for patients with inborn errors of immunity (IEI) but comes with its own set of complications and toxicities. In this nutshell article, we discuss factors that impact definitive therapy decisions in IEI patients.
Keywords: Inborn errors of immunity, bone marrow transplantation, primary immune deficiency, primary immune regulatory disorder
Graphical Abstract

Hematopoietic stem cell transplantation (HCT) for patients with inborn errors of immunity (IEI) is influenced by donor, host and IEI-specific factors. Patient age and the known natural history and/or penetrance of a specific IEI must always be considered when discussing potential HCT. Factors that may indicate a positive outcome include patients that do not have active infections, available well-matched donors, preserved organ function and a well-defined genotype-phenotype. Control of inflammation pre-HCT is also critical to improve outcomes. Factors that may delay HCT include active infection and/or inflammation, limited donor options or significant end organ damage. For optimal outcomes, HCT for IEI must be considered from a complex multi-disciplinary standpoint to make sure the patient is optimized prior to the start of conditioning.
Introduction
Advances in molecular diagnostics and functional assays have increased the number and diversity of monogenic diagnoses of IEI across all ages.1 IEI are broadly divided into primary immune deficiency (PIDs), predominantly characterized by an infectious phenotype, and primary immune regulatory disorders (PIRDs) which have a distinct autoimmune/autoinflammatory component.2 Allogeneic HCT is curative for many of these disorders and outcomes continue to improve.3 As we continue to diagnose increasing numbers of patients with IEI, the major conundrum in the field for many of these disorders is who and when to transplant.
HCT for Classical PIDs and PIRDs
Severe Combined Immunodeficiency (SCID), a disorder of T cell (+/− B cell and/or NK cell) development and function, is the canonical PID. The incorporation of SCID testing in newborn screening by assessment of T-cell receptor excision circle (TRECs) has transformed the treatment paradigm and outcomes for these patients allowing diagnosis to be made prior to severe infections.4 The current practice in SCID is to pursue allogeneic HCT as soon as possible after a diagnosis is made.4 This is primarily due to the viral, fungal and bacterial infections that can be fatal in the first year of life or cause significant organ damage. Furthermore, multi-center data have demonstrated that proceeding to HCT in the absence of active infection significantly improves outcomes.5 Thus, for optimal outcomes in SCID, allogeneic HCT as early as possible and while patients are free from infection is critical. Similarly, data from other PIDs with extensive experience (ex: Wiskott Aldrich Syndrome and Chronic Granulomatous Disease) support superior outcomes for patients that receive HCT early in life.6
The emerging data from allogeneic HCT for PIRDs follows a similar pattern.7 For example, in the largest published series of patients with STAT1 GOF (n = 15) the overall survival (OS) was 60% for patients less than 12 years of age and 0% for those that were older.8 A complicating factor in patients with PIRDs is that uncontrolled inflammation, and particularly activation of the Interferon-γ (IFNγ) pathway, can cause graft rejection/failure and other HCT complications.9 Thus, in addition to pursuing HCT early in life, prior to end organ toxicity (a goal complicated in some cases by prolonged time to diagnosis), inflammation must be adequately controlled for optimal outcomes. Emapalumab (anti-IFNγ antibody; NCT05787574) and JAK inhibitors are two examples of targeted therapeutics that have been reported to effectively bridge patients with JAK/STAT gain of functions to HCT and are currently being investigated in clinical trials.10,11
IEI-specific Considerations for HCT
Despite these illustrative disorders, the decision to pursue allogeneic HCT is often challenging in many of the approximately 500 IEI, particularly for patients with recently discovered or ultra-rare IEI. Lack of data regarding the natural history of a particular disorder and/or lack of functional validation of variants in known or suspected IEI-related genes makes it difficult to consider allogeneic HCT early in life and decisions are typically delayed until patients have been observed to demonstrate repeated clinically significant and severe complications. These decisions are further complicated by the presence of somatic reversion in small subsets of patients with IEI.12 Lack of penetrance data also affects consideration of allogeneic HCT. Penetrance can vary widely even amongst cohorts that have similar (or the same) genetic defect.13 While this makes consideration of HCT based solely on genetic diagnosis very difficult, there is emerging data that in specific gene defects such as those associated with primary hemophagocytic lymphohystiocytosis as well as XLP1, pre-emptive HCT based on presence of genetic mutations has had favorable outcomes.14,15 A third complicating factor that impacts the decision to consider allogeneic HCT is the fact that some genetic IEI have effects on organs outside of the immune system that would not necessarily be corrected by HCT. As most IEI disorders lack validated predictive biomarkers of disease progression, the decision to pursue HCT early in life is complex requiring multiple specialists and ongoing discussions and shared decision making with families about upfront and long-term risks associated with either HCT or medical management. Increased risk of malignancy in certain IEIs also needs to be addressed as it may factor into when and who to transplant. A further complication is that each IEI manifests differently and each patient may therefore require different sub-specialty input for these complex therapeutic discussions. There is a critical unmet need for predictive biomarkers to assist in making these very difficult decisions about proceeding to early upfront HCT. Given the lack of ability to prognosticate many individual cases, there is a growing experience of allogeneic HCT in adult patients with IEI with improving outcomes.16,17
The incorporation of targeted therapies into the treatment paradigm for IEI, though beneficial, has also further complicated the decision to pursue early upfront HCT. For instance, in patients with STAT1 GOF, a disorder characterized by mucocutaneous candidiasis, opportunistic infections and autoinflammatory complications, ruxolitinib, a JAK1/2 inhibitor, has been shown to ameliorate symptoms.11 Long term risks and sustained efficacy, however, are still being investigated. For some patients with STAT1 GOF, ruxolitinib can ameliorate symptoms and patients are able to proceed with their everyday lives. For others, ruxolitinib is unable to control disease symptoms, and for still others, ruxolitinib can control symptoms temporarily but loses efficacy over time. Ruxolitinib changes the natural history of STAT1 GOF in that there is less end organ damage, less infection and less autoinflammatory complications.11 This likely shifts the need to go to HCT early in life but by how long and in which patients remains a critical question.
HCT-intrinsic Considerations in IEI
Limitations regarding transplant procedures also influence decisions regarding allogeneic HCT. For patients with an available, unaffected matched family donor, the decision to proceed with allogeneic HCT early is easier because outcomes are expected to be optimal. Given the incomplete penetrance of many IEIs though, genetic testing for the known mutation should always be done prior to proceeding with a related donor. For patients with only alternative donor options (matched and mismatched unrelated, haploidentical, cord blood etc.) the decision is more complex given the increased risk of graft versus host disease, graft failure and subsequent morbidity and mortality.18 Modifications of conditioning regimens over time to optimize chemotherapeutic intensities and other improvements in anti-microbial options and GVHD prophylaxis and treatment have improved HCT outcomes, thus making it easier to consider allogeneic HCT in IEI disorders.19,20 However, modern mortality risks still range from approximately 5–30% depending on the disorder and patient and transplant characteristics. Though we continue to reduce transplant related mortality, we are still learning and understanding the long-term side effects for patients with IEI that undergo HCT and a focus on appropriate interventions to mitigate long-term sequelae will help further improve outcomes.21 Continued advancements will likely continue to lower the threshold for consideration of allogeneic HCT over time.
In summary, experience with both PID and PIRDs demonstrates that approaching HCT at a young age, without infection, with minimal end organ damage and well controlled inflammation is critical for optimal outcomes. Transplant decisions are complicated by the lack of ability to prognosticate how each patient’s underlying disease will progress, lack of validated predictive biomarkers, desire to minimize and control pre-transplant inflammation and by transplant-related limitations such as donor availability and general transplant-related complications. The emergence of successful gene therapy/modification approaches for certain IEIs will add another layer of complexity in deciding which curative approach is best for each patient. Thus, there are many vital areas on which we should continue to refine our approach and given the rare nature of these disorders, efforts should include international collaborations, consortia, registries, standardized comprehensive data collection tools and multi-institutional trials to generate critical data and improve outcomes for patients with IEI.
Allogeneic HCT offers a possible cure to patients with IEI
Uncertainty regarding the natural history of patients with recently discovered or ultra-rare IEI impacts decision-making
Targeted therapeutics can provide a bridge to HCT but also can change the natural history thereby complicating the decision when to pursue HCT
Early HCT without active infection, end organ dysfunction, active autoimmunity or inflammation leads to optimal outcomes in IEI
Many complex IEI cases benefit from a multi-disciplinary approach and discussion from the outset so that definitive treatment with allogeneic HCT is considered on an ongoing basis
Acknowledgements:
We thank Joseph Olechnowicz for editorial assistance.
Funding:
Joseph Oved acknowledges support of the NCI Cancer Center Support Grant P30 CA008748. He is supported by grant 5R01FD007829 from the FDA’s Office of Orphan Development. The content is the sole responsibility of the authors and does not necessarily represent the official views of the FDA or the FDA’s Office of Orphan Development.
JHO receives research support from Sobi. He receives consulting fees/honoraria from Sobi, Amgen, Grifols, Turn.Bio and Ensoma. He serves as the site PI for JSP191 in SCID.
RAM is employed part-time by Pharming Healthcare, Inc, Warren, NJ
AP serves on advisory boards for Bluebird Bio and Rocket Pharmaceuticals.
References
- 1.Tangye SG, Al-Herz W, Bousfiha A, Cunningham-Rundles C Franco JL, Holland SM et al. Human Inborn Errors of Immunity: 2022 Update on the Classification from the International Union of Immunological Societies Expert Committee J Clin Immunol 2022. Oct;42(7):1473–1507 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 2.Chan AY & Torgerson TR PIRD: Primary Immune Regulatory Disorders, A Growing Universe of Immune Dysregulation Curr Opin Allergy Clin Immunol 2020. Dec;20(6):582–590 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 3.Muratori R, Bonfim C HCT in the Widening Spectrum of Congenital Immunodeficiencies Curr Opin Hematol 2025. Jan 1;32(1)61–66 [DOI] [PubMed] [Google Scholar]
- 4.Thakar M, Logan BR, Puck JM, Dunn EA, Buckley RH, Cowan MJ et al. Measuring the Effect of Newborn Screening on Survival after Haematopoietic Cell Transplantation for Severe Combined Immunodeficiency: A 36-year Longitudinal Study from the Primary Immune Deficiency Treatment Consortium. Lancet 2023. Jul8;402(10396):129–140 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 5.Lankester AC, Neven B, Mahlaoui N, Asmuth EGJ, Courteille V, Alligon M Hematopoietic cell transplantation in severe combined immunodeficiency: The SCETIDE 2006–2014 European Cohort. J Allergy Clin Immunol 2022. May;149(5):1744–1754 [DOI] [PubMed] [Google Scholar]
- 6.Burroughs LM, Petrovic A, Brazauskas R, Liu X, Griffith LM, Ochs HD et al. Excellent Outcomes Following Hematopoietic Cell Transplantation for Wiskott-Aldrich Syndrome: A PIDTC Report Blood 2020. Jun4;135(23):2094–2105 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 7.McClory SE, Oved JH Transplantation for Immune Dysregulatory Disorders: Current Themes and Future Expectations Curr Opin Pediatr 2024. Dec 1;36(6):693–701 [DOI] [PubMed] [Google Scholar]
- 8.Leiding JW, Okada S, Hagin D, Abinun M, Shcherbina A, Balashov DN et al. Hematopoietic Stem Cell Transplantation in Patients with Gain-of-Function Signal Transducer and Activator of Transcription 1 mutations J Allergy Clin Immunol 2018. Feb;14(2):704–717.e5. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 9.Merli P, Caruana I, De Vito R, Strocchio L, Weber G, Del Bufalo F et al. Role of Interferon-g in Immune Mediated Graft Failure after Allogeneic Hematopoietic Stem Cell Transplantation Haematologica 2019. Nov;104(11):2314–2323 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 10.Kunvarjee B, Bidgoli A, Madan RP, Vidal E, McAvoy D, Hosszu KK et al. Emapalumab as Bridge to Hematopoietic Cell Transplant for STAT1 gain-of-function Mutations J Allergy Clin Immunol 2023. Sep;152(3):815–817 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 11.Fischer M, Olbrich P, Hadjadj J, Aumann V, Bakhtiar S, Barlogis V et al. JAK Inhibitor treatment for inborn errors of JAK/STAT Signaling: An ESID/EBMT-IEWP Retrospective Study J Allergy Clin Immunol 2024. Jan;153(1):275–286 [DOI] [PubMed] [Google Scholar]
- 12.Pillay BA, Fudaro M, Gray PE, Statham AL, Burnett L, Bezrodnik L et al. Somatic reversion of pathogenic DOCK8 variants alters lymphocyte differentiation and function to effectively cure DOCK8 deficiency. J Clin Invest 2021. Feb1;131(3):e142434. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 13.Stewart O, Gruber C, Randolph HE, Patel R, Ramba M, Calzoni E et al. Monoallelic Expression Can Govern Penetrance of Inborn Errors of Immunity Nature 2025. Jan;637(8048):1186–1197 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 14.Lucchini G, Marsh R, Gilmour K, Worth A, Nademi Z, Rao A et al. Treatment dilemmas in asymptomatic children with primary hemophagocytic lymphohistiocytosis. Blood 2018. Nov8;132(19):2088–2096 [DOI] [PubMed] [Google Scholar]
- 15.Tomomasa D, Booth C, Bleesing JJ, Isoda T, Kobayashi C, Koike K et al. Preemptive hematopoietic cell transplantation for asymptomatic patients with X-linked lymphoproliferative syndrome type 1. Clin Immunol 2022. Apr:237:108993. [DOI] [PubMed] [Google Scholar]
- 16.Cheminant M, Fox TA, Alligon M, Bouaziz O, Neven B, Moshous D et al. Allogeneic stem cell transplantation compared to conservative management in adults with inborn errors of immunity. Blood 2023. Jan 5;141(1):60–71 [DOI] [PubMed] [Google Scholar]
- 17.Fox TA, Massey V, Lever C, Pearce R, Laurence A, Grace S et al. Pre-Transplant Immune Dysregulation Predicts for Poor Outcome Following Allogeneic Haematopoietic Stem Cell Transplantation in Adolescents and Adults with Inborn Errors of Immunity. J Clin Immunol 2025. Jan6;45(1):64. [DOI] [PMC free article] [PubMed] [Google Scholar]
- 18.Lum SH, Albert MH, Gilbert P, Sirait T, Algeri M, Muratori R et al. Outcomes of HLA-mismatched HSCT with TCRab/CD19 Depletion or post-HSCT Cyclophosphamide for Inborn Errors of Immunity Blood 2024. Aug1;144(5):565–580 [DOI] [PubMed] [Google Scholar]
- 19.Bognar T, Garcia-Rosa M, Lalmohamed A, Gungor T, Hauri-Hohl M, Prockop S et al. Association of Busulfan Exposure and Outcomes after HCT for Patients with Inborn Errors of Immunity Blood Adv 2024. Oct 8;8(19):5137–5145 [DOI] [PMC free article] [PubMed] [Google Scholar]
- 20.Fitch T, Lane A, McDonnell J, Bleesing J, Jordan M, Kumar A et al. Age Impacts Risk of Mixed Chimerism Following Reduced-Intensity Conditioning Hematopoietic Cell Transplantation for Non-Severe Combined Immune Deficiency Inborn Errors of Immunity Transplant Cell Ther 2024. Jan;30(1):101.e1–101.e12 [DOI] [PubMed] [Google Scholar]
- 21.Eissa H, Thakar MS, Shah AJ, Logan BR, Griffith LM, Dong H et al. Posttransplantation late complications increase over time for patients with SCID: A Primary Immune Deficiency Treatment Consortium (PIDTC) landmark study. J Allergy Clin Immunol 2024. Jan;153(1):287–296 [DOI] [PMC free article] [PubMed] [Google Scholar]
