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Annals of the Rheumatic Diseases

○ Elsevier BV

Preprints posted in the last 30 days, ranked by how well they match Annals of the Rheumatic Diseases's content profile, based on 36 papers previously published here. The average preprint has a 0.03% match score for this journal, so anything above that is already an above-average fit.

1
Mechanophenotype of synovial fibroblasts correlates with patients' pathotypes and treatment response in Rheumatoid Arthritis

Diaz, F.; Debatin, T.; Messner, L.; Mouchel dit Grainville, C.; Andres, J.; Riethmuller, F.; Vaishampayan Vikrant, R.; Fronza, R.; Taheri, F.; Wang, Z.; Selhuber-Unkel, C.; Colombo, F.

2026-10-06 biophysics 10.64898/2026.10.01.755901 medRxiv
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The mechanical features of synovial fibroblasts may encode clinically relevant information for the management of rheumatoid arthritis. Indeed, it remains poorly understood the links between cellular and microenvironment mechanics with patient stratification and therapeutic response. Here we show that combining organotypic synovial cultures with multimodal mechanophenotyping and transcriptomics identifies distinct ''soft'' and ''stiff'' fibroblast states. Healthy and rheumatoid arthritis fibroblasts were cultured in two or three dimensions (organotypic cell cultures), alone or with endothelial cells, and characterized by high-throughput nanoindentation, picobalance measurements, digital holographic microscopy, Brillouin microscopy and RNA sequencing. Three-dimensional culture reduced single-cell Young's modulus and total mass while increasing dry-mass surface density; endothelial co-culture increased fibroblast stiffness and the longitudinal modulus of intact organotypic cultures. Stiffness-based grouping revealed transcriptional programmes related to extracellular-matrix remodelling, cytoskeletal contractility, and TGF-beta, WNT, and Hippo signalling. Mapping these signatures to publicly available rheumatoid arthritis clinical transcriptomic datasets associated the ''stiff'' state with fibrotic and myeloid-fibrotic pathotypes and treatment-refractory programmes, whereas the ''soft'' state aligned with lymphoid pathotypes and rituximab- or tocilizumab-responsive programmes. These findings support mechanophenotype-associated transcriptional signatures as potential biomarkers for rheumatoid arthritis stratification.

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Comparative Burden of COVID-19 in Adults with Rheumatic Diseases and Immunocompetent Individuals: A Population-Based Cohort Study in Quebec, Canada, 2020-2023

Carazo, S.; Colmegna, I.; Bernatsky, S.; Fortin, P. R.; Jean, S.; Talbot, D.; Rochette, L.; Guay, C.-A.; Libman, M.; Desjardins, M.; Quach, C.; Skowronski, D. M.; De Serres, G.; Canadian Immunization Research Network,

2026-09-22 rheumatology 10.64898/2026.09.21.26363556 medRxiv
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Introduction: Across major phases of the COVID-19 pandemic (March 2020-April 2023), we compared the burden of severe COVID-19 among individuals with systemic autoimmune rheumatic diseases (SARDs) versus immunocompetent individuals with and without comorbidities. Methods: This population-based cohort study used administrative datasets to estimate crude and age- and sex-standardized SARS-CoV-2 and severe COVID-19 incidences among adults >18 years with SARDs, chronic comorbidities, or no comorbidities. Relative to the latter, we used Cox models to derive adjusted hazard ratios (aHRs) for infection, hospitalization, and intensive care unit admission or death (ICU/death) during the pre-vaccination (March-December 2020), vaccination pre-Omicron (December 2020-December 2021), and Omicron (December 2021-April 2023) periods. Results: We included 81,434 adults with SARDs, and 2,020,356 with comorbidities versus 3,144,700 without comorbidities. Despite similar adjusted infection rates, the SARDS cohort had higher risks of hospitalization and ICU/death during the pre-vaccination period (aHRs: 3.4, 95%CI:2.8-4.1; and 4.0, 95%CI:2.8-5.7, respectively), persisting through the Omicron period (aHRs: 4.5, 95%CI:4.0-4.9; and 4.4, 95%CI:3.6-5.4, respectively). Among SARDS, rheumatoid arthritis, psoriatic arthritis and systemic lupus erythematosus contributed highest burden, with comparable hospitalization and mortality rates among younger rheumatoid arthritis versus healthy older adults. Highly immunosuppressive rituximab- or mycophenolate-treated patients had highest hospitalization and ICU/death risks, particularly during the Omicron period (aHRs: 11.9, 95%CI:9.9-14.3; and 17.6, 95%CI:13.0-23.9, respectively). Conclusion: Individuals with SARDs, especially receiving highly immunosuppressive therapies, experienced elevated COVID-19 burden and severe outcome risks throughout the pandemic, warranting their prioritized consideration during future public health emergencies.

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Diabetes related antibody signature highlights ZnT8 as a novel antigenic target in rheumatoid arthritis

Erlandsson, M. C.; Chandrasekaran, V.; Neumann, E.; Zhang, Y.; Alsoofi, M.; Silfversward, S. T.; Maglio, C.; Mueller-Ladner, U.; Pullertis, R.; Bokarewa, M. I.

2026-10-01 rheumatology 10.64898/2026.09.25.26364002 medRxiv
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Objective: Autoantibodies are central for pathology of rheumatoid arthritis (RA) and diabetes mellitus (DM) carrying high predictive and diagnostic value. Here, we explore the frequency and functional potential of DM-related antibodies (DMab) in RA. Methods: DMab targeting glutamic acid decarboxylase (GAD65ab), tyrosine phosphatase-like islet antigen 2 (IA2ab) and zinc transporter 8 (ZnT8ab) were measured in 326 DM-free RA patients (260 females, 66 males), using specific ELISAs. The DMab profile was analysed in relation to 30 clinical and serological variables. ZnT8+ cells were detailed by a public single-cell transcriptome in RA synovial tissue. Results: DMab production was more frequent in females, dominated by ZnT8ab (86%), followed by GAD65ab (26.4%) and IA2ab (7.0%). DMab-positive patients, and specifically ZnT8ab-positive women, had higher levels of insulin and HOMA-IR index and lower serum IL-6, IFN{gamma}, and IL-9. Multivariable logistic regression estimating ZnT8ab, IA2ab, GAD65ab production revealed that BDNF, insulin and DAS28 were positive predictors of ZnT8ab. Increasing ZnT8ab levels were inversely related to RAab in the mixed interaction model. CD14+ cell transcriptome identified association between an activated secretory cell type and increasing ZnT8ab levels. Additionally, ZnT8ab levels were in direct proportion with ZnT8 production in RA CD4+ T cells. Single-cell transcriptome of RA synovial tissue revealed ZnT8+ cells among the lubricin producing lining layer fibroblasts programmed for invasive behaviour. Conclusion: This study reveals frequent production of ZnT8ab in non-diabetic RA patients and identifies their antigenic target expressed in lining synovial fibroblasts of RA joints.

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Activating variants in PRKD2 in two families with Systemic sclerosis, and enrichment of rare variants in a sporadic series.

Maus, P.; Tilman, G.; Boutry, S.; Loriot, A.; Conjard, T.; Hatoum, J.; Dens, A.-C.; Du Four, T.; Nolf, D.; Hirsch, T.; Gomard, T.; Helaers, R.; De Langhe, E.; Ishikawa, Y.; Allanore, Y.; Terao, C.; Fellay, J.; Vanthuyne, M.; Smith, V.; Limaye, N.

2026-09-25 rheumatology 10.64898/2026.09.20.26363195 medRxiv
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Systemic sclerosis (SSc) is a rare, heterogeneous autoimmune disease characterized by immune dysregulation, vasculopathy and fibrosis. While typically sporadic, SSc can in a minority of cases show familial clustering. Whole exome sequencing (WES), performed on six families with two affected members each, identified a total of 253 genes with rare, disease co-segregating variants predicted to affect protein function. Of these, we prioritized PRKD2, one of only three genes identified in two families. PRKD2 encodes Protein kinase D2: an intracellular serine-threonine kinase that amplifies T cell receptor (TCR) signaling. Both familial SSc-associated PRKD2 missense variants increased kinase activation, exerting overlapping, activating effects on TCR signaling in heterozygous knock-in Jurkat cells. A pan-PRKD inhibitor suppressed T cell activation in peripheral blood mononuclear cells from both familial SSc cases and controls. The enrichment of PRKD2 rare variants in a sporadic SSc cohort provides further support for its relevance to SSc pathogenesis. Together, these findings identify PRKD2 rare variants as potential genetic contributors to SSc, and PRKD2-mediated TCR signaling as a candidate disease-relevant and potentially targetable pathway.

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A detectability floor for treatment-response labels in rheumatology transcriptomics

Yang, H.; Huang, Y.; Xu, J.; Zhang, S.; Liao, R.

2026-10-06 rheumatology 10.64898/2026.10.04.26364671 medRxiv
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Objectives. Before-and-after transcriptomics in rheumatic disease often yields no reproducible treatment signal, though disease-state stratification is robust. We asked whether exposure and response-prediction labels fall below the detection floor of the designs defining them, while matched disease-state labels do not. Methods. Eight public datasets were analysed (paired juvenile dermatomyositis n = 10; RA before/after methotrexate, n = 28 pairs; lupus nephritis n = 10; controlled exposures; a single-cell dose series). Response labels in current use (one benchmark trajectory, five published signatures) were audited in every analysable source cohort, using effect sizes (dz) against each design's exact minimum detectable effect. Results. Disease-state labels were detectable: the interferon signature declined in 10/10 juvenile dermatomyositis patients (p = 0.002; 59.5% of score variance). No exposure label cleared its design floor in any clinical cohort; a drug-matched methotrexate prior was nominally significant in juvenile dermatomyositis yet did not clear its floor (dz = -0.80; CI spanning it). Exposure became detectable only where prior-context and intensity were jointly favourable (multi-day target tissue dz = 1.24, q = 0.018; well-level pseudobulk dz = +3.70, floor 1.80). Audited response labels failed in 14 of 15 cohorts (93%; descriptive binomial 95% CI 68-100): eleven below their floors, three sign-reversed; the largest training cohort pooled to zero (dz = +0.07; I2 = 69%). Effect size ordered reported AUCs monotonically. Conclusion. Under conventional treatment intensities, exposure and response-prediction labels are either undetectable below the design floor or detected with a sign that does not replicate; disease-state labels are detectable. Part of the negative literature reflects a design floor.

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A mast cell receptor is associated with fibrosis and itch in systemic sclerosis

Kothari, R.; Capuzzi, D.; Kilgore, C.; Oh, H. J.; Patel, S.; Srikumar, A.; Leatherman, G.; Shah, A. A.; Kang, J.; Dong, X. P.

2026-10-10 immunology 10.64898/2026.10.02.756290 medRxiv
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Systemic sclerosis (SSc) is an autoimmune connective tissue disease characterized by symmetric fibrosis of the skin and multiple internal organs. The mechanisms that trigger early fibrotic changes remain unclear. Mast cells are known to infiltrate human SSc lesional skin in early disease stages, yet the role of mast cells in initiating fibrosis and pruritus in SSc remains debated, in part due to unclear pathways of mast cell activation. Here, we show that mast cells, via the receptor Mrgprb2, contribute to fibrosis in the bleomycin (BLM)-induced skin fibrosis mouse model. Mast cells accumulate in the skin of BLM-treated wild-type (WT) but not Mrgprb2-knockout (Mrgprb2-/-) mice. Mrgprb2-/- mice show attenuated disease severity, with reduced collagen deposition and lower expression of matrix metalloproteinases and inflammatory markers associated with fibrosis. BLM treatment also increases pruritus in WT mice in the early stages of the model; an effect reduced in Mrgprb2-/- mice. This is the first report of itch in this model of skin fibrosis, further linking it to clinical SSc, where pruritus is an early and prevalent symptom affecting nearly half of patients. In a parallel human cohort, lesional SSc skin harbors significantly more mast cells than paired non-lesional skin from the same patients, demonstrating that mast cell accumulation is specific to affected tissue. Lesional mast cell counts also track with skin disease severity, correlating with modified Rodnan skin score and patient-reported skin tightness. Together, these findings implicate Mrgprb2-mediated mast cell activity in both fibrosis and pruritus in SSc, highlighting mast cells as a candidate therapeutic target in this understudied disease process.

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Double-Negative B Cell Expansion Defines a Relapse-Prone Immunophenotype in Newly Diagnosed Giant Cell Arteritis

Nieto-Carvalhal, B.; Monjo-Henry, I.; Campos-Fabre, C.; Garcia-Carazo, S.; Bohorquez, C.; Villalba, A.; Peiteado, D.; de Miguel, E.; Miranda-Carus, M.-E.

2026-10-01 immunology 10.64898/2026.09.25.754436 medRxiv
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Background: Giant cell arteritis (GCA), traditionally considered T cell-driven, exhibits vascular B/plasma-cell infiltrates and altered circulating B-cell homeostasis, suggesting a pathogenic role for B cells. Relapse is common in newly diagnosed GCA (nGCA), yet predictive biomarkers remain elusive. Objective: To characterize circulating B-cell subpopulations in nGCA and assess their association with 12-month relapse. Methods: Baseline multiparametric flow cytometry was performed on peripheral blood samples from consecutive patients with nGCA and sex/age-matched healthy controls (HC). Patients received standard treatment per 2018 EULAR recommendations and were followed longitudinally. Results: 102 patients with nGCA and 102 matched HC were included. One-year outcome data were available for 55 patients, of whom 34 relapsed and 21 remained relapse-free. Baseline B-cell homeostasis differed by disease course. Non-relapsers showed reduced total CD19+ B-cell counts and contraction of most B-cell subsets, while CD27-IgD-double-negative (DN) B-cell counts remained comparable to HC. Conversely, relapsers maintained total B-cell numbers above HC despite reduced memory compartments, driven by expanded naive and DN B cells, alongside preserved plasmablast and transitional B-cell counts. At 6 months, total B-cell counts increased only in non-relapsers. DN B cells showed the greatest divergence between groups and independently predicted relapse. DN B-cell counts also correlated with circulating T peripheral helper cell numbers, supporting extrafollicular immune pathway activation. Conclusion: nGCA is characterized by outcome-dependent disturbances in B-cell homeostasis. Expansion of the DN B-cell compartment identifies a relapse-prone immunophenotype and represents a clinically relevant biomarker for early risk stratification.

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Accuracy of diagnostic codes and algorithms used to identify connective tissue diseases in electronic health records and administrative databases: systematic review and meta-analysis.

Saka-Herran, C.; Mani Prabu Kumar, T.; Keane, D.; Albert, P.; Clyne, B.; McCarthy, C.; Tynan, G.; Dunne, N.; Flood, M.; McCarthy, E.; Moriarty, F.

2026-09-25 rheumatology 10.64898/2026.09.23.26363795 medRxiv
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Objective: To assess the accuracy of codes and algorithms used to identify selected connective tissue diseases (CTDs) in electronic health records (EHRs) and administrative databases. Methods: We searched MEDLINE, Embase, and CENTRAL databases for studies that validated case definitions in EHRs against a reference standard, including rheumatologist-confirmed diagnosis or clinical classification criteria. Title/abstract screening, full-text review, data extraction, and quality appraisal were independently performed in duplicate. Findings were synthesised narratively and through a bivariate random-effects meta-analysis of sensitivity and specificity. Results: A total of 38 studies were included. Systemic lupus erythematosus (SLE) was the most frequently studied disease, followed by systemic sclerosis (SSc). Across diseases, progressively restrictive algorithms generally improved positive predictive value (PPV), although the optimal strategy varied by disease. In SLE, multiple diagnostic codes provided the most favorable overall performance, whereas adding clinical data provided limited incremental benefit. In SSc, disease-specific clinical features, particularly Raynaud's phenomenon, improved case identification, while specialist or inpatient-based algorithms performed better for polymyositis/dermatomyositis, although evidence was limited. For SLE, meta-analysis yielded pooled sensitivity of 0.90 (95% Cis 0.70-0.97), specificity of 0.83 (95% CIs 0.54-0.95), and PPV of 0.75 (95% CIs 0.59-0.86). Evidence for Sjogren's Disease was limited to one study, and no studies evaluated MCTD/UCTD. Conclusions: Optimal EHR case-identification strategies vary by disease and should be tailored to disease-specific clinical and diagnostic characteristics rather than algorithm complexity alone. Future research should develop and externally validate robust, standardised algorithms in representative populations, using rigorous validation methods, and assess the added value of longitudinal EHR data, biomarkers, and computational phenotyping approaches.

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iPSC-Derived Myotubes from ME/CFS Patients Reveal Signature Genes, Isoforms and Pathways with Drug Repurposing Potential

Nguyen, D.; Truong, T. T. T.; Panizzutti, B.; Ellis, M.; Spolding, B.; Swinton, C.; Bortolasci, C. C.; Bryce, J.; Smith, J.; Field, C.; Liu, Z. S.-J.; Kim, J. H.; Berk, M.; Walder, K.

2026-10-07 cell biology 10.64898/2026.10.01.755863 medRxiv
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Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a complex multisystem disorder. Its hallmark feature, post-exertional malaise (PEM), is a delayed and prolonged worsening of symptoms following even minor exertion. As PEM commonly includes muscle pain, weakness, exercise intolerance and impaired recovery, skeletal muscle dysfunction may contribute to its pathophysiology, but the underlying molecular processes remain poorly understood. We generated induced pluripotent stem cell-derived skeletal muscle myotubes from individuals with ME/CFS (n = 6) and healthy controls (n = 7) to investigate disease-associated transcriptomic alterations and identify potential therapeutic candidates. Myogenic progenitor cells from both groups differentiated into elongated, multinucleated myotubes expressing titin and myosin heavy chain, while qPCR profiling of myogenic differentiation markers further supported successful differentiation. Gene-level analysis identified three differentially expressed genes at an FDR-adjusted p < 0.05: ERVH48-1, CDX4 and SLC2A14. Isoform-switching analysis identified 16 genes with significant differential isoform usage, including CACNA1H, MIEF2, SMAD2 and CHD4. Gene set enrichment analysis identified broader pathway-level alterations involving RNA processing, protein synthesis, proteostasis, mitochondrial quality control, metabolism and muscle-related processes. Library of Integrated Network-based Cellular Signatures Phase 2 (LINCS2) analysis further prioritised 14 compounds associated with mitochondrial metabolism, glucose and lipid regulation, PPAR signalling, calcium and excitatory signalling, neuroimmune activity and cellular stress responses. Overall, ME/CFS iPSC-derived myotubes showed modest gene-level differences alongside broader isoform- and pathway-level alterations, supporting their use for investigating skeletal muscle biology and prioritising candidates for functional validation.

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A regulatory T cell signature provides a shared molecular basis for the therapeutic window of opportunity in rheumatic disease

Binvignat, M.; Martina, F.; Pitoiset, F.; Roux, A.; Lorenzon, R.; Hodara, P.; Barennes, P.; Vantomme, H.; Sastre, M.; Hassler, S.; Ribet, C.; Courties, A.; Mhanna, V.; Stys, P.; Adda, L.; Diderot, V.; Vicaut, E.; Aheng, C.; Coatnoan, N.; Six, A.; Tchitchek, N.; Rosenzwajg, M.; Berenbaum, F.; Klatzmann, D.; Sellam, J.; Mariotti-Ferrandiz, E.

2026-09-27 immunology 10.64898/2026.09.21.753213 medRxiv
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Rheumatic diseases, including rheumatoid arthritis (RA), spondyloarthritis (SpA) and osteoarthritis (OA), show distinct phenotypes yet respond to overlapping therapies, implicating shared immune mechanisms. In the Transimmunom cohort, we profiled peripheral blood from 240 individuals (47 healthy, 44 OA, 91 RA, 58 SpA) across deep immunophenotyping, immunoproteomics and Treg-Teff transcriptomics. Single-layer analyses revealed broader Treg than Teff remodeling, along with a shared pattern of reduced activated Tregs and expanded Helios+ Tregs across all diseases, alongside a decrease in functional Treg subpopulations, including CTLA4+ and CD45RA- Tregs. In RA specifically, LAG3+ Tregs were also expanded. Combining omics layers outperformed single-layer approaches for disease classification. Among individual layers, Treg transcriptomes were most discriminative, and integration uncovered disease-specific programs. Unsupervised clustering identified a cross-disease cluster independent of activity, treatment and age, mapping to early disease (<= years) and dominated by a Treg dysfunction-associated program. These results provide a biological rationale for the therapeutic "window of opportunity" concept and duration-stratified Treg-directed trials.

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Conserved Fibroblast Subsets Drive Shared Fibrotic Mechanisms in Osteoarthritis Synovium and Systemic Sclerosis Skin

Mohan, A.; Newton, M. D.; Bhate, N.; Khmelevskaya, A.; Hanna, T. M.; DiCarlo, E.; Ospelt, C.; Orange, D.; Varga, J.; Maerz, T.

2026-10-06 cell biology 10.64898/2026.10.05.756653 medRxiv
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Osteoarthritis (OA) and systemic sclerosis (SSc) are diseases with distinct etiologies but similar disease phenotypes, most prominently fibrosis, a process governed by the pathological activation of fibroblasts. Mechanisms underpinning fibrosis in these diseases are widely studied, though have yet to be directly compared. We employed single-cell RNA-seq and high-resolution spatial transcriptomics to describe the functional plasticity and the range of fibroblast activation states in both diseases. We identified disease-enriched fibroblast subsets conserved in both diseases, including fibrogenic myofibroblast-like cells, chemokine- and cytokine-expressing inflammatory fibroblasts, and lining-like fibroblasts. These subsets exhibited convergent fibrotic programs also observed in idiopathic pulmonary fibrosis, as well as overlapping osteochondral transcriptional programs. Xenium 5K spatial transcriptomics revealed that conserved, disease-associated fibroblasts reside in highly similar anatomic niches in OA synovium and SSc skin. These consisted of a fibrotic ECM-rich niche harboring myofibroblast-like cells and an inflammatory niche containing inflammatory fibroblasts adjacent to infiltrating immune cells. Disease-associated transcriptional remodeling converged on shared functional pathways and common putative upstream molecular regulators. These findings identify conserved cellular states, spatial niches, and regulatory programs across OA and SSc, suggesting that fibrotic disease is underpinned by shared pathogenic stromal states and candidate targets for therapeutic strategies are applicable across both diseases.

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Distinct synovial fluid B-cell differentiation and activation profiles in rheumatoid arthritis

Huang, W.; Ghannoum, S.; Wangriatisak, K.; Hooijsma, A.; Nakazawa, M.; Franzen, L.; Petkov, S.; Chatzidionysiou, K.; Malmström, V.; Grönwall, C.

2026-09-29 immunology 10.64898/2026.09.24.754012 medRxiv
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CD11c+CD21- B cells are overrepresented in rheumatoid arthritis (RA). Here we delineate their functional state at site of inflammation and its molecular basis. Phenotypic profiling of paired blood and synovial fluid from patients with anti-citrullinated protein antibody (ACPA) seropositive RA (N=12), seronegative RA (N=10) and spondyloarthritis (N=8), demonstrated a striking enrichment of CD11c+CD21- B cells in synovial fluid in all three diseases (average of CD19+ cells: 67%, 49% and 51%). In ACPA-positive RA we identified increased proportions of CD11c+IgG+CD27low cells and several stages of pre-plasmablasts. The CD11c+CD21- cells had a phenotype indicating BCR activation, proliferation, and antigen presentation. This B-cell profile was mirrored by a LAG3+CTLA4+TIGIT+ peripheral helper T-cell program in ACPA-positive RA, contrasting a CCR6+ Th17-skewing in seronegative RA. Single-cell spatial proteomics revealed a unique CD11chighCD21 low B-cell surface architecture including a BCR co-receptor-tetraspanin signature with CD72-CD81 co-localization, which was elevated in RA. CD11c+ cells also displayed CD44-CD52/CD59 and MHCII-CD40/CD84 immune-modules absent in other B-cell subsets. In summary, CD11c+CD21- B cells are highly diverse, and while an activated antigen-experienced synovial profile was shared between disease groups, ACPA+ RA showed evidence of increased extrafollicular plasmablast differentiation. Surface receptor organization implicated a favoured BCR responsiveness, complement resistance and antigen presentation.

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Immunogenicity and vaccine effectiveness of COVID-19 vaccines in people on immunosuppressive therapies

Stadler, E.; Khan, S. R.; Elias, K. M.; Egilmezer, E.; Phetsouphanh, C.; Hastak, P.; Hewavisenti, R. V.; Joshi, R. V.; Turner, T.; Cromer, D.; Sasson, S. C.; Davenport, M. P.; Khoury, D. S.

2026-09-22 infectious diseases 10.64898/2026.09.16.26363194 medRxiv
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Neutralizing antibodies are a correlate of protection (CoP) of SARS-CoV-2 vaccine efficacy. However, data informing CoPs often explicitly exclude people on immunosuppressive therapies who are at an increased risk of symptomatic and severe COVID-19, delayed viral clearance, and death. Investigating the relationship between antibodies and protection for people on immunosuppressive therapies could provide insights into mechanisms of protection. We performed a systematic search to identify studies reporting SARS-CoV-2 binding antibody levels after mRNA vaccination in people with hematological malignancies, neurological disorders, rheumatic diseases, and mixed immune-mediated inflammatory disorders (IMIDs) on immunosuppressive therapies including B-cell depletion, JAK inhibitors, and S1P inhibitors, as well as healthy controls. Binding antibody levels varied between cohorts receiving different immunosuppressive treatments. Compared to healthy controls the lowest antibody levels were observed in subjects treated with B-cell depletion (54.5-fold reduction, 95% CI: 34.5-86.2) and S1P inhibitors (24.8-fold reduction, 95% CI: 13.2-46.7). To assess the association between antibody level and protection, we used data from a previous study of COVID-19 vaccine effectiveness in people with the same underlying conditions. We linked vaccine effectiveness estimates with the predicted antibody level in people on immunosuppressive therapies (using antibody data including this meta-analysis of binding antibody levels). Predicted neutralizing antibody levels were correlated with vaccine effectiveness both for infection and hospitalization (p<0.0001 and p<0.0001, respectively). However, we found that for any given antibody level, people who are immunosuppressed had lower protection against infection and hospitalization than a healthy population.

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IgG4 antibody repertoire diversity is stable over several years in health and autoimmune disease

Wollenweber, L.; Paardekooper, L. M.; Campman, Y. J. M.; van Bokkum, J. M.; Tannemaat, M. R.; Verschuuren, J. J. G. M.; Barendregt, A.; Heck, A. J. R.; Bondt, A.; Huijbers, M. G.

2026-10-06 immunology 10.64898/2026.09.30.755566 medRxiv
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Despite its relative anti-inflammatory nature, IgG4 is involved in a variety of pathological conditions such as autoimmune disease and cancer. To investigate whether the IgG4 repertoire presents any abnormalities in diseases where IgG4 autoantibodies predominate, we charted longitudinal IgG4 repertoires in health, in an IgG4-mediated autoimmune disease (AID; muscle-specific kinase myasthenia gravis (MuSK MG)), and in IgG1/IgG3 mediated AIDs (acetylcholine receptor (AChR) MG and Lambert-Eaton myasthenic syndrome (LEMS). In total, we assessed 218 samples of 69 donors using mass spectrometry-based antibody repertoire analysis, covering a timespan of up to eight years. Despite being superficially inconspicuous in clonal diversity and abundances, we detected a slightly elevated number of IgG4 clones in MuSK MG patients compared to healthy donors. Notably, this observation did not coincide with drastic repertoire changes during treatment, suggesting that a large portion of the IgG4 repertoire is not significantly affected by common MuSK MG treatment regimens. Comparing the IgG4 antibody repertoires of all donors, we found that they were exceptionally unique for each individual. Against what would be expected in the case of a constantly adapting antibody repertoire, a large portion of the IgG4 clones remained stable without any further maturation. This observation even extended to patients receiving B cell depleting or IgG modulating treatments. Our findings suggest that a dominating fraction of the IgG4 pool may be produced by long-lived plasma cells, which are unaffected by disease or medical interventions.

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Longitudinal linear-epitope profiling of SLE identifies novel antigens associated with disease and disease activity

Hurabielle, C.; Wang, Y. V.; Castillo-Rojas, B.; Wang, C.-Y.; Caspar, C.; Asaki, J.; Dayao, M.; Calcoen, M.; Merrill, E. D.; Bodansky, A.; Klepper, A.; Chung, E. N.; Vissers, C.; Zorn, K. C.; Anderson, M. S.; Wilson, M.; Izmirly, P.; Buyon, J.; Yazdany, J.; Dall'Era, M.; Ye, C. J.; DeRisi, J. L.

2026-10-04 immunology 10.64898/2026.09.29.755420 medRxiv
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Systemic lupus erythematosus (SLE) is the prototypical systemic autoimmune disease defined by the production of autoantibodies directed against diverse self-antigens. Antinuclear antibodies (ANA) are central to SLE diagnosis, and anti-double-stranded DNA (anti-dsDNA) antibodies are clinically used to track disease activity. However, these biomarkers provide only partial insight into the full spectrum of autoimmune changes in patients. To expand the known landscape of SLE autoreactivity shared among patients and associated with disease activity, we performed an unbiased characterization of 1,268 SLE plasma samples from 695 SLE patients and 301 healthy controls using phage immunoprecipitation and sequencing (PhIP-seq). This technique preferentially displays linear epitopes, and thus provides a complementary set of autoreactivities to previously discovered autoreactive targets. Despite the marked clinical heterogeneity of SLE, machine learning applied to this data surfaced a shared, reproducible signature that robustly discriminates between SLE and healthy controls in two validation cohorts. Autoreactivities in SLE were significantly enriched for RNA-binding protein targets. Autoreactive proteins containing Basic Acidic Dipeptides (BAD) repeat domains, features associated with biomolecular condensate formation, distinguished patients with high disease activity (by SLEDAI score) from patients with no disease activity. Among all shared autoreactivities, a peptide derived from YTHDF2 emerged as the most prevalent target across SLE cohorts occurring in ~25% of SLE patients and displayed striking sequence similarity to a peptide derived from the Epstein Barr virus (EBV) lytic switch protein BZLF1. Competition assays demonstrated higher-affinity binding to the viral peptide, supporting a model in which antiviral humoral responses to EBV may drive secondary epitope spreading toward molecularly mimicked self-antigens. Remarkably, orthogonal validation using the Luminex bead platform containing a panel of only 10 peptides, including BZLF1, demonstrated strong discrimination between SLE and healthy controls (AUC = 0.95). Together, these findings identify a rich, greatly expanded landscape of autoreactivities in SLE, candidate biomarkers associated with high disease activity, and provide mechanistic insight linking EBV-driven immunity to epitope-specific autoimmunity in lupus.

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CD19 CAR Engineered T Regulatory Cells Promote Durable Immune Tolerance in Experimental Systemic Lupus Erythematosus

Drow, T.; Doglio, M.; Grimm, A.; DeVault-Nelson, V.; Hoover, M.; McKinney, B.; Tripathi, S. K.; Mellen, J.; Milazewski, M.; Zarin, P.; Burgess, A.; Moore, C. L.; Carulli, P.; Ugolini, A.; Bercher, C.; Vakil, A.; Dahl, N. P.; Ponnan, S. M.; Mungra, N.; Akilesh, S.; Chen, Y.; Knebusch, P.; Jackson, S. W.; Patel, C.; Chen, T.; Del Rio-Espinola, A.; Bonini, C.; Wickham, T.; Cook, P. J.; Rawlings, D. J.

2026-10-11 immunology 10.64898/2026.10.05.756761 medRxiv
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While the immune reset induced by CD19 CAR T therapies has shown striking promise in systemic lupus erythematosus (SLE), the nature and duration of benefit mediated by B cell depletion remains unclear. Loss of tolerance in SLE is driven by extrafollicular and germinal center interactions between dendritic cells and self-reactive T and B cells. We hypothesized that CD19 CAR-engineered regulatory T cells (CAR19 EngTreg), capable of suppressing multiple autoimmune effector cell types, might promote long-term tolerance without producing high-levels of inflammatory mediators. To generate CAR19 EngTreg, we combined CD19 CAR delivery with homology directed repair at the FOXP3 locus to drive constitutive, stable FOXP3 expression in CD4 T cells. CAR19 EngTreg expressed canonical Treg markers; exhibited minimal inflammatory cytokine production; and blocked human B cell differentiation into antibody secreting plasma cells. In humanized mouse models, transfer of CAR19 EngTreg led to a reduction in B cell numbers with low inflammatory cytokine production relative to CD19 CAR Teff, and reduced tissue inflammation. In a short-term, in vivo imiquimod-induced inflammatory model, murine CAR19 EngTreg reduced skin pathology, spleen size, and inflammatory cytokines. Finally, in two distinct mouse models of lupus, CAR19 EngTreg persisted for >4 months leading to reduced autoimmune T and B effector populations, sustained reduction in multiple autoantibodies and improved renal function and histopathology. Thus, CAR19 EngTreg may offer a promising and durable therapeutic avenue for B cell-mediated autoimmune disorders capable of long-term regulation of both autoreactive B and T cells.

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Prevalence and Predictors of Pain and Fatigue in Pediatric Acute-Onset Neuropsychiatric Syndrome (PANS)

Miles, K.; Schlenk, N.; Ma, M.; Farahadian, B.; Leonard, S.; Knight, O.; Challa, S. A.; Gao, S.; Gunther, S. H.; Manko, C.; Xie, Y.; Tran, P.; Silverman, M.; Hoffman, K. W.; Thienemann, M.; Frankovich, J.

2026-10-05 rheumatology 10.64898/2026.10.02.26364612 medRxiv
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Objectives: Patients with pediatric acute-onset neuropsychiatric syndrome (PANS) frequently report pain and fatigue. While some patients experience resolution of pain and fatigue following improvement in psychiatric symptoms, others develop persistent symptoms resembling fibromyalgia. Understanding these trajectories is critical for early identification and intervention in patients at risk for chronic pain or fatigue. In this study we characterize fibromyalgia symptoms in PANS and identify predictors of symptom progression following a PANS flare. Design: Prospective observational cohort study. Setting: Stanford University Immune Behavioral Health (IBH) Clinic in Menlo Park, California, USA. Participants: 204 consecutive patients with PANS evaluated by the IBH Clinic. The average (SD) age at first neuropsychiatric deterioration was 8.2 (3.3) years. Main outcome measures: We prospectively collected data on pain, fatigue, and other fibromyalgia symptoms using the 2016 American College of Rheumatology (ACR) Fibromyalgia Survey Questionnaire (FSQ), which includes the Widespread Pain Index (WPI) and Symptom Severity Scale (SSS). For the reference standard, clinician-documented diagnoses of pain syndromes were ascertained through a retrospective review of participants' electronic medical records. We report the prevalence of these symptoms in PANS patients and controls and evaluate factors associated with time to meeting ACR fibromyalgia criteria threshold scores following clinic presentation using a Cox proportional hazards model. Results: Among 204 patients with PANS (110 boys [54%]), eighty-five (42%) met ACR fibromyalgia criteria threshold scores at least once during follow-up (95% CI at 10 years follow-up time: 60.5 [46.7-74.5]). Twenty-eight of these 85 patients (13.7% of total cohort) progressed to meet full ACR fibromyalgia criteria (95% CI at 10 years follow-up time: 24.1 [15.6-36.2]). Compared with controls, patients with PANS reported substantially elevated rates of pain, daytime fatigue, waking unrefreshed, and cognitive symptoms (brain fog). Higher scores on the WPI and SSS at presentation were associated with a higher hazard of subsequently meeting ACR fibromyalgia criteria threshold scores. Conclusions: Fibromyalgia symptoms were common in this PANS cohort, with a notable subset developing symptoms meeting full ACR fibromyalgia criteria. These findings suggest that pain and fatigue may represent post-inflammatory sequelae of PANS and may overlap mechanistically with other post-infectious conditions. Recognizing these symptom patterns may inform clinical management, development of outcome measures, and future clinical trials in these patients, as well as support investigation into shared neuroimmune mechanisms underlying post-infectious pain and fatigue syndromes.

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TGFB1-Engineered Induced Mesenchymal Stromal Cells Exhibit High Immunomodulatory Potency and Durably Reprogram Synovial Macrophages in Osteoarthritis

Fan, K.; Rasti, M.; Khan, R.; Ziyaeyan, A.; Barazandeh, A. F.; Low, R.; Garcia, J.; Safara, S.; Nouri, S.; Robb, K. P.; Gandhi, R.; Viswanathan, S.

2026-09-29 immunology 10.64898/2026.09.24.753893 medRxiv
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Clinical translation of mesenchymal stromal cell (MSC) therapies derived from primary tissue sources is limited by manufacturing inconsistencies driven by donor-to-donor variability, which reduces predictability of clinical response. Induced pluripotent stem cell (iPSC)-derived MSCs (iMSCs) offer a promising donor-independent, clonal alternative strategy that is also more amenable to engineering, but whether engineered iMSCs reproduce the potency attributes of primary MSCs remains unclear. Here, we benchmarked a doxycycline-inducible, hTERT-immortalized iMSC line engineered to overexpress TGFB1 (TGFB1-iMSCs), a key regulator of macrophage polarization, against multiple adipose tissue-derived MSC (MSC(AT)) donors across predefined immunomodulatory and angiogenic potency attributes. TGFB1-iMSCs were smaller and more circular with comparable or higher proliferative rates than primary MSC(AT) donors. Interestingly, they had a distinct angiogenic signature (EDIL3, EDN1, PDGFA), and nine differentially expressed microRNAs were predicted to target secretory trafficking and growth factor receptor signalling. Functionally, however, TGFB1-iMSCs secreted less VEGF and showed intermediate HUVEC tube formation, but matched or exceeded all primary MSC(AT) donors in a monocyte-macrophage transwell immunomodulatory assay. Notably, in a murine destabilization of the medial meniscus (DMM) model of post-traumatic osteoarthritis, a single intra-articular injection of TGFB1-iMSCs, but not MSC(AT), reduced total synovial macrophage numbers and lowered the MHCII/CD206 ratio at eight weeks, although it did not reduce cartilage degeneration, synovitis, or fibrosis. Together, these findings show that TGFB1-engineered iMSCs have a macrophage-directed potency profile distinct from that of primary MSC(AT). Immortalized iMSCs therefore provide a reproducible platform for mechanistically dissecting engineered MSC potency and its effects on the immune environment.

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Genetic architecture of immune-mediated thrombotic thrombocytopenic purpura in Han Chinese individuals

Gan, Z.; Hao, X.

2026-09-27 genetic and genomic medicine 10.64898/2026.09.21.26363596 medRxiv
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Thrombotic thrombocytopenic purpura (TTP) is a rare, life-threatening thrombotic microangiopathy caused by a severe deficiency of the ADAMTS13 protease. We performed the first large-scale genome-wide association study (GWAS) of TTP in 1,344 individuals of Han Chinese ancestry, comprising a discovery cohort (n = 913) and a validation cohort (n = 431). We identified two independent susceptibility loci, including the known locus 6p21 and the novel locus 14q32. At the known locus 6p21, the lead signal rs2187668 is near HLA-DQA1 and strongly associated with TTP risk (P = 5.35e-10; Odds Ratio [OR] = 3.94). At the novel locus 14q32, the lead SNP rs1024350 (P = 1.01e-10; OR = 1.90) is located between LINC00221 and MIR5195. Fine-mapping prioritized rs2187668 as the leading signal at 6p21, whereas HLA imputation and stepwise conditional analysis further pinpointed amino acid position 74 of HLA-DRB1 as the primary driver of the broader MHC association (P = 2.28e-10), superseding classical allele-based models. Structural analysis revealed that position 74 lines pocket 4 of the HLA-DRB1 peptide-binding groove; the risk-conferring Leu/Arg residues at this position carried by HLA-DRB1*08:03 and DRB1*03 may favour presentation of ADAMTS13-derived autoantigenic peptides, whereas the common Ala residue is protective. In summary, we reconstructed the genetic architecture of TTP in East Asians and identified structural gatekeepers of autoimmunity, providing novel targets for precision medicine and ethnic-specific risk stratification.

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The annexin A1 mimetic peptide Ac2-26 promotes inflammation-resolution and stimulates skeletal muscle regeneration in the mdx mouse model of Duchenne muscular dystrophy

Rehman, H.; Lu, X.; Nasrallah, S. M.; Sharma, B.; Lies, S.; Adhikari, S.; Welc, S. S.; Markworth, J. F.

2026-10-06 cell biology 10.64898/2026.10.05.756885 medRxiv
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Duchenne muscular dystrophy (DMD) is an X-linked disorder mainly affecting young boys characterized by repeated cycles of myofiber injury/regeneration and chronic muscle inflammation. Although glucocorticoids can slow disease progression, their potential long-term adverse effects highlight the need for new steroid-sparing therapies for DMD. Annexin A1 (ANXA1) is a glucocorticoid-induced pro-resolving protein that signals primarily through formyl peptide receptor 2 (FPR2). We investigated whether the ANXA1 mimetic peptide Ac2-26 could reduce inflammation, stimulate tissue regeneration, and improve skeletal muscle function in muscular dystrophy. 3-week-old dystrophin-deficient male mdx mice were randomized to receive daily intraperitoneal injections of vehicle control, deflazacort (1 mg/kg/day), or Ac2-26 (1 mg/kg/day) for a duration of 5-weeks. Body composition, skeletal muscle mass, contractile function, and tissue histopathology/immune-cell infiltration were assessed at 8-weeks of age. Direct effects on myogenesis were also examined in vitro using primary D2-mdx myoblasts. ANXA1 was expressed predominantly by myeloid cells rather than resident dystrophic muscle cells. Both deflazacort and Ac2-26 markedly reduced intramuscular inflammation and increased myofiber size. However, Ac2-26 produced broader anabolic and functional benefits, increasing body-weight gain, lean body mass, hindlimb muscle weights, and absolute contractile force. Ac2-26 treatment also directly promoted myogenesis of dystrophic myoblasts in vitro, while pharmacological FPR2 blockade impaired myotube development. Overall, Ac2-26 mimicked the anti-inflammatory effects of deflazacort while providing superior benefits for body weight and composition, skeletal muscle growth, myofiber regeneration, and absolute muscle strength. These findings support therapeutic targeting of the ANXA1-FPR2 axis as a potential safe and effective steroid-sparing immunomodulatory strategy for DMD.