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| 35311638 | Prolonged silent carriage, genomic virulence potential and transmission between staff and patients characterize a neonatal intensive care unit (NICU) outbreak of methicillin-resistant <i>Staphylococcus aureus</i> (MRSA). | Infect Control Hosp Epidemiol | 2023 |
| 37632288 | Detection of High-Risk Paraneoplastic Antibodies against TRIM9 and TRIM67 Proteins. | Ann Neurol | 2023 |
| 38077035 | Pulmonary microbiome and transcriptome signatures reveal distinct pathobiologic states associated with mortality in two cohorts of pediatric stem cell transplant patients. | medRxiv | 2023 |
| 37803001 | Systematic functional interrogation of SARS-CoV-2 host factors using Perturb-seq. | Nat Commun | 2023 |
| 37712060 | In host evolution of beta lactam resistance during active treatment for <i>Pseudomonas aeruginosa</i> bacteremia. | Front Cell Infect Microbiol | 2023 |
| 37937074 | Implementation of California COVIDNet - a multi-sector collaboration for statewide SARS-CoV-2 genomic surveillance. | Front Public Health | 2023 |
| 37934865 | Validation of a murine proteome-wide phage display library for identification of autoantibody specificities. | JCI Insight | 2023 |
| 37493629 | Broad susceptibility of <i>Candida auris</i> strains to 8-hydroxyquinolines and mechanisms of resistance. | mBio | 2023 |
| 35709010 | Autoantibodies to Perilipin-1 Define a Subset of Acquired Generalized Lipodystrophy. | Diabetes | 2023 |
| 37214861 | Antigenic responses are hallmarks of fibrotic interstitial lung diseases independent of underlying etiologies. | medRxiv | 2023 |
| 37470786 | Rubella virus tropism and single-cell responses in human primary tissue and microglia-containing organoids. | Elife | 2023 |
| 37308466 | Whole-genome sequencing rule-out of suspected hospital-onset <i>Rhizopus</i> outbreaks. | Infect Control Hosp Epidemiol | 2023 |
| 37009900 | Integrated host/microbe metagenomics enables accurate lower respiratory tract infection diagnosis in critically ill children. | J Clin Invest | 2023 |
| 37205595 | A Predictive Autoantibody Signature in Multiple Sclerosis. | medRxiv | 2023 |
| 37066405 | Validation of a murine proteome-wide phage display library for the identification of autoantibody specificities. | bioRxiv | 2023 |
| 37398174 | Novel autoantibody targets identified in patients with autoimmune hepatitis (AIH) by PhIP-Seq reveals pathogenic insights. | medRxiv | 2023 |
| 37163026 | PhIP-Seq uncovers novel autoantibodies and unique endotypes in interstitial lung disease. | bioRxiv | 2023 |
| 36961855 | Field assessment of BinaxNOW antigen tests as COVID-19 treatment entry point at a community testing site in San Francisco during evolving omicron surges. | PLoS One | 2023 |
| 36790168 | Antibodies to repeat-containing antigens in <i>Plasmodium falciparum</i> are exposure-dependent and short-lived in children in natural malaria infections. | Elife | 2023 |
| 36509151 | NFKB2 haploinsufficiency identified via screening for IFN-α2 autoantibodies in children and adolescents hospitalized with SARS-CoV-2-related complications. | J Allergy Clin Immunol | 2023 |
| 36805129 | Computational pipeline provides mechanistic understanding of Omicron variant of concern neutralizing engineered ACE2 receptor traps. | Structure | 2023 |
| 36507688 | A 2-Gene Host Signature for Improved Accuracy of COVID-19 Diagnosis Agnostic to Viral Variants. | mSystems | 2023 |
| 36573629 | Successful Treatment of Balamuthia mandrillaris Granulomatous Amebic Encephalitis with Nitroxoline. | Emerg Infect Dis | 2023 |
| 36798288 | Autoantigen profiling reveals a shared post-COVID signature in fully recovered and Long COVID patients. | medRxiv | 2023 |
| 36824717 | Broad sensitivity of <i>Candida auris</i> strains to quinolones and mechanisms of resistance. | bioRxiv | 2023 |
| 36756346 | Dual ankyrinG and subpial autoantibodies in a man with well-controlled HIV infection with steroid-responsive meningoencephalitis: A case report. | Front Neurol | 2023 |
| 36181424 | Genomic analysis, immunomodulation and deep phenotyping of patients with nodding syndrome. | Brain | 2023 |
| 36089700 | Low Prevalence of Interferon α Autoantibodies in People Experiencing Symptoms of Post-Coronavirus Disease 2019 (COVID-19) Conditions, or Long COVID. | J Infect Dis | 2023 |
| 35263147 | Pulmonary microbiome and gene expression signatures differentiate lung function in pediatric hematopoietic cell transplant candidates. | Sci Transl Med | 2022 |
| 35479304 | Viral Load Among Vaccinated and Unvaccinated, Asymptomatic and Symptomatic Persons Infected With the SARS-CoV-2 Delta Variant. | Open Forum Infect Dis | 2022 |
| 35803954 | Upper airway gene expression shows a more robust adaptive immune response to SARS-CoV-2 in children. | Nat Commun | 2022 |
| 35350199 | Autoantibody discovery across monogenic, acquired, and COVID19-associated autoimmunity with scalable PhIP-Seq. | bioRxiv | 2022 |
| 35581007 | βIV-Spectrin Autoantibodies in 2 Individuals With Neuropathy of Possible Paraneoplastic Origin: A Case Series. | Neurol Neuroimmunol Neuroinflamm | 2022 |
| 35544096 | Pneumonia surveillance with culture-independent metatranscriptomics in HIV-positive adults in Uganda: a cross-sectional study. | Lancet Microbe | 2022 |
| 35544065 | Lower respiratory tract infections in children requiring mechanical ventilation: a multicentre prospective surveillance study incorporating airway metagenomics. | Lancet Microbe | 2022 |
| 35502904 | Genome-Wide Knockout Screen Identifies Human Sialomucin CD164 as an Essential Entry Factor for Lymphocytic Choriomeningitis Virus. | mBio | 2022 |
| 35793002 | Zika virus alters centrosome organization to suppress the innate immune response. | EMBO Rep | 2022 |
| 35466441 | ZSCAN1 Autoantibodies Are Associated with Pediatric Paraneoplastic ROHHAD. | Ann Neurol | 2022 |
| 35818068 | Metagenomic prediction of antimicrobial resistance in critically ill patients with lower respiratory tract infections. | Genome Med | 2022 |
| 35354815 | Integrating central nervous system metagenomics and host response for diagnosis of tuberculosis meningitis and its mimics. | Nat Commun | 2022 |
| 36527083 | Prevalence of type-1 interferon autoantibodies in adults with non-COVID-19 acute respiratory failure. | Respir Res | 2022 |
| 36215069 | COVID-19 Symptoms and Duration of Rapid Antigen Test Positivity at a Community Testing and Surveillance Site During Pre-Delta, Delta, and Omicron BA.1 Periods. | JAMA Netw Open | 2022 |
| 36040175 | Discovery and Genomic Characterization of a Novel Henipavirus, Angavokely Virus, from Fruit Bats in Madagascar. | J Virol | 2022 |
| 36301834 | Reproducibility and implementation of a rapid, community-based COVID-19 "test and respond" model in low-income, majority-Latino communities in Northern California. | PLoS One | 2022 |
| 36300623 | Autoantibody discovery across monogenic, acquired, and COVID-19-associated autoimmunity with scalable PhIP-seq. | Elife | 2022 |
| 36266337 | Integrated host-microbe plasma metagenomics for sepsis diagnosis in a prospective cohort of critically ill adults. | Nat Microbiol | 2022 |
| 35895370 | Case Report: Cambodian National Malaria Surveillance Program Detection of Plasmodium knowlesi. | Am J Trop Med Hyg | 2022 |
| 35982665 | Computational pipeline provides mechanistic understanding of Omicron variant of concern neutralizing engineered ACE2 receptor traps. | bioRxiv | 2022 |
| 36252253 | Comparison of SARS-CoV-2 Reverse Transcriptase Polymerase Chain Reaction and BinaxNOW Rapid Antigen Tests at a Community Site During an Omicron Surge. | Ann Intern Med | 2022 |
| 33788923 | Estimation of Secondary Household Attack Rates for Emergent Spike L452R Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Variants Detected by Genomic Surveillance at a Community-Based Testing Site in San Francisco. | Clin Infect Dis | 2022 |