A5101415890- Cytomegalovirus and herpesvirus research
- Systemic Lupus Erythematosus Research
- Viral Infections and Immunology Research
- Inflammatory Myopathies and Dermatomyositis
- interferon and immune responses
- Neurogenetic and Muscular Disorders Research
- Immunodeficiency and Autoimmune Disorders
- RNA Research and Splicing
- Microbial Metabolic Engineering and Bioproduction
- Protein Structure and Dynamics
- T-cell and B-cell Immunology
- Musculoskeletal Disorders and Rehabilitation
- COVID-19 and healthcare impacts
- RNA regulation and disease
- Monoclonal and Polyclonal Antibodies Research
- Celiac Disease Research and Management
- Musculoskeletal synovial abnormalities and treatments
- Liver Disease and Transplantation
- Muscle Physiology and Disorders
- RNA and protein synthesis mechanisms
- Eosinophilic Disorders and Syndromes
- Healthcare Systems and Technology
- Telemedicine and Telehealth Implementation
- Cell Adhesion Molecules Research
- Autoimmune and Inflammatory Disorders Research
Fred Hutch Cancer Center
2025
University of Washington
2021-2025
Seattle University
2025
National Institute of Arthritis and Musculoskeletal and Skin Diseases
2024
National Institutes of Health
2024
Liquid-liquid phase separation (LLPS) is a physicochemical process through which homogeneous liquid solution spontaneously separates into distinct phases with different compositions and properties. Driven by weak multivalent interactions, LLPS in living systems allows the dynamic compartmentalization of biomolecules to regulate enhance various cellular processes. Despite recent advances, predicting phase-separating proteins their key LLPS-driving regions remains limited versatility models....
ABSTRACT Approximately 17% of our genome consists copies the retrotransposon “ l ong in terspersed e lement‐1” (LINE‐1 or L1). Patients with systemic lupus erythematosus (SLE) frequently have autoantibodies against L1‐encoded ORF1 protein (ORF1p), which correlate disease activity and interferon gene signature. ORF1p is present neutrophils from patients active perinuclear ribonucleoprotein particles that also contain Ro60 nucleic acid sensors. Here, we report treatment monocytes demethylating...
Objective To test whether messenger RNA (mRNA) splicing is altered in neutrophils from patients with systemic lupus erythematosus (SLE) and can produce neoantigens. Methods sequencing of SLE (n = 15) healthy donors 12) were analyzed for mRNA using the RiboSplitter pipeline, an event‐focused tool based on SplAdder subsequent translation protein domain annotation. SARS‐CoV2–infected individuals was used as additional comparator. Results Neutrophils contained 521 statistically significant...
To illuminate the poorly understood aetiology of SLE by comparing gene expression profile neutrophils with that from patients infected SARS-CoV-2, a disease (COVID-19) well-defined antigens and similar type I interferon response. RNA sequencing (n=15) healthy controls (n=12) was analysed for differential modulated pathways. The same analyses were performed on neutrophil dataset SARS-CoV-2 infection (n=30) (n=8). Next, we carried out comparative to identify common unique transcriptional...
Abstract Background Patients with systemic lupus erythematosus (SLE) have autoantibodies against the L1-encoded open-reading frame 1 protein (ORF1p). Here, we report (i) which immune cells ORF1p emanates from, (ii) L1 loci are transcriptionally active, (iii) whether express L1-dependent interferon and interferon-stimulated genes, (iv) effect of inhibition ORF2p by reverse transcriptase inhibitors. Results was detected flow cytometry primarily in SLE CD66b + CD15 regular low-density...
The study objective was to assess sociodemographic disparities in telehealth use among patients an urban adult rheumatology clinic during the coronavirus disease 2019 (COVID-19) pandemic.In this retrospective cohort study, patient-level data associated with all visits following two periods were reviewed: pre-COVID-19 (March 1, February 28, 2020) and COVID-19 (April 2020 March 31, 2021). Data extracted from electronic health record. Multivariable logistic regression analyses performed...
Objective To expand, in an unbiased manner, our knowledge of autoantigens and autoantibodies patients with systemic lupus erythematosus (SLE) evaluate their associations serological clinical variables. Methods Human proteome arrays (> 21,000 proteins) were screened serum from SLE (n = 12) healthy controls 6) for IgG IgA binding. Top hits validated 2 cohorts (cohort 1, n 49; cohort 2, 46) other rheumatic diseases by ELISA. Clinical the tested. Results Ro60 was top hit screen, 10 following...
Many patients suffering from autoimmune diseases have autoantibodies against proteins encoded by genomic retroelements, suggesting that normal epigenetic silencing is insufficient to prevent the production of for which immune tolerance appears be limited. One such protein transmembrane envelope (Env) human endogenous retrovirus K (HERV-K). We reported recently with rheumatoid arthritis (RA) IgG recognize Env. Here, we use RNA sequencing RA neutrophils analyze HERV-K expression and find only...
Objective The pathogenesis of inflammatory myopathies is poorly understood and there a need to dissect the transcriptome in more granular ways beyond gene expression. Methods We used set muscle RNA‐sequencing data from different myositis subtypes grouped by their specific autoantibodies (n = 152). quantified annotated RNA transcripts for each subtype identified uniquely expressed as well transcriptional similarities among types. In addition, we event‐based alternative splicing with predicted...
To understand the biological impact of alternative pre-mRNA splicing, it is vital to know which exons are involved, what protein domains they encode, and how translated isoforms differ. Therefore, we developed a computational pipeline (RiboSplitter) focused on functional effect prediction. It builds event-based splicing detection with additional filtering steps leading more efficient statistical testing, isoform-specific changes. A key methodological advance reading frame prediction by...
To evaluate independent risk factors for readmission and to determine the major reasons in a nationally representative sample of patients with systemic lupus erythematosus (SLE).
Abstract Dermatomyositis is an autoimmune condition characterized by a high interferon signature of unknown etiology. Because genes constitute only <2% our genomes, there need to explore the role non-coding genome in disease pathogenesis. Our genomes include roughly 1.2 million Alu elements occupying about 10% and can form double-stranded (ds)RNA capable triggering MDA5 leading production. We aligned muscle biopsy RNA sequencing data Telomere-to-Telomere reference quantified short...