ArticleJournal of clinical virology : the official publication of the Pan American Society for Clinical Virology2021
Comprehensive pathogen detection for ocular infections.
Article in Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 1 of them a synthesis that pooled it.
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Who cites it
16 citing papers in PubMed, 1 synthesis or guideline pooled it, 24 citations in OpenAlex.
- Metagenomic Next-Generation Sequencing for the Diagnosis of Infectious Uveitis: A Comprehensive Systematic Review.Viruses · 2025Pooled it
- Multi‑omics insights into uveitis: From mechanisms to precision medicine (Review).International journal of molecular medicine · 2026Review
- Rhizopus angle abscess, scleritis and endophthalmitis following Kahook Dual Blade goniotomy and phacoemulsification.American journal of ophthalmology case reports · 2026Article
- Integrated metagenomic sequencing and phage display-based immunoprecipitation sequencing for presumptive viral infection: a case report.American journal of ophthalmology case reports · 2026Article
- Metagenomic next-generation sequencing: a game-changer in the diagnosis of unique intraocular infections.Eye (London, England) · 2025Article
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- Association of Weather Variables With Pathogens Contributing to Conjunctivitis Worldwide.Clinical infectious diseases : an official publication of the Infectious Diseases Society of America · 2025Article
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- Article
- Apollo Rising: Acute Conjunctivitis Outbreak in India, 2022.Cornea open · 2023Article
- Deep sequencing analysis of acute conjunctivitis in Burkina Faso, Africa.International health · 2023Article
- Ankylosing spondylitis: acute/subacute vs. chronic iridocyclitis - a bidirectional two-sample Mendelian randomization study.Frontiers in immunology · 2023Article
- An update on immunological and molecular tests and their impact in infectious uveitis.Frontiers in ophthalmology · 2023Review
- Outpatient human coronavirus associated conjunctivitis in India.Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology · 2022Article
- Interepidemic Respiratory Syncytial Virus during the COVID-19 Pandemic.Microbiology spectrum · 2022Article
- Vaccine-Associated Measles Encephalitis in Immunocompromised Child, California, USA.Emerging infectious diseases · 2022Article
Corrections and comments
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Authors and funding
11 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundMolecular diagnostics such as pathogen-directed PCRs have transformed testing for ocular infections since the late 1990s. Although these assays remain important diagnostic tools for samples with low biomass, the lack of diagnostic range motivates alternative molecular approaches for ocular infections. The aim of this study was to determine the performance of a high-throughput RNA sequencing approach, RNA-seq, to detect infectious agents in ocular samples from patients with presumed ocular infections.
methodsWe compared the performance of RNA-seq to pathogen-directed PCRs using remnant nucleic acids from 41 aqueous or vitreous samples of patients with presumed ocular infections. Pathogen-directed PCRs were performed at the CLIA-certified Stanford Clinical Virology Laboratory. RNA-seq was performed in a masked manner at the Proctor Foundation at the University of California San Francisco. Percent positive and negative agreement between the two testing approaches were calculated. Discordant results were subjected to orthogonal testing.
resultsThe positive percent agreement between RNA-seq and pathogen-directed PCRs was 100% (95% confidence interval (CI): 78.5%-100%). The negative percent agreement was 92.6% (95% CI: 76.6%-97.9%). RNA-seq identified pathogens not on the differential diagnosis for 9.7% (4/41) of the samples. Two pathogens solely identified with RNA-seq were confirmed with orthogonal testing.
conclusionsRNA-seq can accurately identify common and rare pathogens in aqueous and vitreous samples of patients with presumed ocular infections. Such an unbiased approach to testing has the potential to improve diagnostics although practical clinical utility warrants additional studies.
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