Lupus & antiphospholipid syndrome

Unsupervised machine learning identifies distinct SLE patient endotypes with differential response to belimumab

Rheumatology (Oxford)Published Secondary analysis of the BLISS-SC randomised trial

An erratum to this article was published (Rheumatology (Oxford), 4 Feb 2026 ↗)

Authors' conclusion

Three distinct SLE endotypes were identified based on B cell immunophenotyping and serological profiles, showing differential benefit from belimumab therapy.

Study context

Population
Patients with SLE from the phase III trial BLISS-SC
Participants
796 patients
Comparison
Belimumab vs placebo within B cell/serological endotypes
  • Cluster 1n = 191
  • Cluster 2n = 366
  • Cluster 3n = 239
Primary endpoint
SLE endotypes by B cell immunophenotyping and serological profile; belimumab response (lupus low disease activity state (LLDAS), definitions of remission in SLE (DORIS) remission) within endotypes
Methodological detailsunsupervised machine learning, factor analysis of mixed data (FAMD) and clustering, Cox regression
  • Unsupervised machine learning
  • Factor analysis of mixed data (FAMD) and clustering
  • Cox regression

Primary result

As reported in the abstract

Endotypes identified
Three endotypes were determined
3
Cluster 1: CD19+CD24b+CD27+ regulatory B cells, mean ± SD
35.9%±12.6%
Cluster 1: CD19+CD20+CD27+ bulk memory B cells
32.2%±9.9%
Cluster 1: CD19+CD20+CD69+ activated B cells
0.2%±0.3%
Cluster 1: CD19+CD20-CD138+ long-lived plasma cells
0.7%±1.0%
Cluster 1: CD19+CD38b+CD27b+ SLE-associated plasma cells
6.6%±7.0%
Cluster 2: CD19+CD24bbrightCD38bbrightCD27- transitional B cells
6.3%±9.0%
Cluster 2: CD19+CD20+CD27- naïve B cells
85.4%±7.2%
Cluster 2: CD19+CD20-CD138+ peripheral long-lived plasma cells (lower)
0.2%±0.3%
Cluster 2: CD19+CD38b+CD27b+ SLE-associated plasma cells (lower)
1.6%±2.0%
Cluster 3: CD19+CD20+CD138+ short-lived plasma cells
0.1%±0.1%

Further findings

OutcomeEstimateP value
Sustained LLDAS, belimumabvs placebo in Cluster 2Cox regression within clusterHR for achieving sustained LLDAS 2.22 (95% CI 1.18–4.17)P = 0.014
DORIS remission, belimumabvs placebo in Cluster 2Cox regression within clusterHR for achieving DORIS remission 3.45 (95% CI 1.2–9.94)P = 0.022

Original publication

Unsupervised machine learning identifies distinct SLE patient endotypes with differential response to belimumab. Rheumatology (Oxford). Published 17 April 2025. doi:10.1093/rheumatology/keaf215

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