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Walk the evidence base by book and chapter — the raw source passages that ground Ask, Differential, and the rest.

• (untitled)1 passage
• A method for detection of SARS-CoV-2 RNA in healthy human stool: a validation study.1 passage
• A novel strategy for SARS-CoV-2 mass screening with quantitative antigen testing of saliva: a diagnostic accuracy study.1 passage
• Antibiotic prophylaxis and the gastrointestinal resistome in paediatric patients with acute lymphoblastic leukaemia: a cohort study with metagenomic sequencing analysis.1 passage
• Antimicrobial resistance in paediatric1 passage
• Assessing a novel, lab-free, point-of-care test for SARS-CoV-2 (CovidNudge): a diagnostic accuracy study.1 passage
• Assessing whether isoniazid is essential during the first 14 days of tuberculosis therapy: a phase 2a, open-label, randomised controlled trial.1 passage
• Azithromycin susceptibility of1 passage
• Blood transcriptional biomarkers of acute viral infection for detection of pre-symptomatic SARS-CoV-2 infection: a nested, case-control diagnostic accuracy study.1 passage
• Co-infections, secondary infections, and antimicrobial use in patients hospitalised with COVID-19 during the first pandemic wave from the ISARIC WHO CCP-UK study: a multicentre, prospective cohort study.1 passage
• Comparative performance of SARS-CoV-2 lateral flow antigen tests and association with detection of infectious virus in clinical specimens: a single-centre laboratory evaluation study.1 passage
• Comparative tropism, replication kinetics, and cell damage profiling of SARS-CoV-2 and SARS-CoV with implications for clinical manifestations, transmissibility, and laboratory studies of COVID-19: an observational study.1 passage
• Comparison of seven commercial SARS-CoV-2 rapid point-of-care antigen tests: a single-centre laboratory evaluation study.1 passage
• Current malaria infection, previous malaria exposure, and clinical profiles and outcomes of COVID-19 in a setting of high malaria transmission: an exploratory cohort study in Uganda.1 passage
• Defining nosocomial transmission of1 passage
• Definition of a genetic relatedness cutoff to exclude recent transmission of meticillin-resistant1 passage
• Detection of1 passage
• Diagnostic performances of common nucleic acid tests for SARS-CoV-2 in hospitals and clinics: a systematic review and meta-analysis.1 passage
• Discovery and validation of a three-gene signature to distinguish COVID-19 and other viral infections in emergency infectious disease presentations: a case-control and observational cohort study.1 passage
• Drug susceptibility of1 passage
• Dynamics of SARS-CoV-2 neutralising antibody responses and duration of immunity: a longitudinal study.1 passage
• Dynamics of intestinal multidrug-resistant bacteria colonisation contracted by visitors to a high-endemic setting: a prospective, daily, real-time sampling study.1 passage
• Epidemiology of1 passage
• Genetic variants and their association with phenotypic resistance to bedaquiline in1 passage
• Global patterns of submicroscopic1 passage
• Globally diverse1 passage
• Histopathological findings and viral tropism in UK patients with severe fatal COVID-19: a post-mortem study.1 passage
• Humoral response and PCR positivity in patients with COVID-19 in the New York City region, USA: an observational study.1 passage
• Identification of antibiotic pairs that evade concurrent resistance via a retrospective analysis of antimicrobial susceptibility test results.1 passage
• Inflammatory profile of patients with tuberculosis with or without HIV-1 co-infection: a prospective cohort study and immunological network analysis.1 passage
• Insight into the practical performance of RT-PCR testing for SARS-CoV-2 using serological data: a cohort study.1 passage
• Interference between rhinovirus and influenza A virus: a clinical data analysis and experimental infection study.1 passage
• Invasive mould disease in fatal COVID-19: a systematic review of autopsies.1 passage
• Ledipasvir plus sofosbuvir in pregnant women with hepatitis C virus infection: a phase 1 pharmacokinetic study.1 passage
• Long-term effects of early antiretroviral initiation on HIV reservoir markers: a longitudinal analysis of the MERLIN clinical study.1 passage
• Monitoring of human coronaviruses in Belgian primary care and hospitals, 2015-20: a surveillance study.1 passage
• Multiplex assays for the identification of serological signatures of SARS-CoV-2 infection: an antibody-based diagnostic and machine learning study.1 passage
• Neutralisation of SARS-CoV-2 lineage P.1 by antibodies elicited through natural SARS-CoV-2 infection or vaccination with an inactivated SARS-CoV-2 vaccine: an immunological study.1 passage
• Neutralising antibody titres as predictors of protection against SARS-CoV-2 variants and the impact of boosting: a meta-analysis.1 passage
• Population-level emergence of bedaquiline and clofazimine resistance-associated variants among patients with drug-resistant tuberculosis in southern Africa: a phenotypic and phylogenetic analysis.1 passage
• Potential contribution of HIV during first-line tuberculosis treatment to subsequent rifampicin-monoresistant tuberculosis and acquired tuberculosis drug resistance in South Africa: a retrospective molecular epidemiology study.1 passage
• Radiological and functional evidence of the bronchial spread of tuberculosis: an observational analysis.1 passage
• Reconsidering1 passage
• Reporting practices for genomic epidemiology of tuberculosis: a systematic review of the literature using STROME-ID guidelines as a benchmark.1 passage
• SARS-CoV-2 in fruit bats, ferrets, pigs, and chickens: an experimental transmission study.1 passage
• SARS-CoV-2, SARS-CoV, and MERS-CoV viral load dynamics, duration of viral shedding, and infectiousness: a systematic review and meta-analysis.1 passage
• Safety and immunogenicity of ChAdOx1 MERS vaccine candidate in healthy Middle Eastern adults (MERS002): an open-label, non-randomised, dose-escalation, phase 1b trial.1 passage
• Seroprevalence of SARS-CoV-2 in Hong Kong and in residents evacuated from Hubei province, China: a multicohort study.1 passage
• T-cell and antibody responses to first BNT162b2 vaccine dose in previously infected and SARS-CoV-2-naive UK health-care workers: a multicentre prospective cohort study.1 passage
• The durability of immunity against reinfection by SARS-CoV-2: a comparative evolutionary study.1 passage
• The effect of live attenuated influenza vaccine on pneumococcal colonisation densities among children aged 24-59 months in The Gambia: a phase 4, open label, randomised, controlled trial.1 passage
• Viral presence and immunopathology in patients with lethal COVID-19: a prospective autopsy cohort study.1 passage
• WHO International Standard for evaluation of the antibody response to COVID-19 vaccines: call for urgent action by the scientific community.1 passage
• Xenodiagnosis to evaluate the infectiousness of humans to sandflies in an area endemic for visceral leishmaniasis in Bihar, India: a transmission-dynamics study.1 passage