A5068611941- Respiratory viral infections research
- SARS-CoV-2 detection and testing
- Cytomegalovirus and herpesvirus research
- Polyomavirus and related diseases
- HIV Research and Treatment
- HIV/AIDS Research and Interventions
- Herpesvirus Infections and Treatments
- SARS-CoV-2 and COVID-19 Research
- HIV/AIDS drug development and treatment
- Cervical Cancer and HPV Research
- Viral Infections and Outbreaks Research
- Viral-associated cancers and disorders
- Hepatitis B Virus Studies
- COVID-19 diagnosis using AI
- Tumors and Oncological Cases
- Advanced biosensing and bioanalysis techniques
- Energy Harvesting in Wireless Networks
- Pneumonia and Respiratory Infections
- Influenza Virus Research Studies
- Renal Transplantation Outcomes and Treatments
- Full-Duplex Wireless Communications
- Molecular Biology Techniques and Applications
- Neurological Complications and Syndromes
University Hospital of Basel
2019-2024
University of Basel
2017-2024
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged in China as the cause of disease 2019 December and reached Europe by late January 2020, when community-acquired viruses (CARVs) are at their annual peak. We validated World Health Organization (WHO)-recommended SARS-CoV-2 assay analyzed epidemiology CARVs.Nasopharyngeal/oropharyngeal swabs (NOPS) from 7663 patients were prospectively tested Basel S-gene WHO-based E-gene (Roche) assays parallel using N-gene for confirmation....
Abstract Background Since 2019, the World Health Organization has recommended dolutegravir-based antiretroviral therapy (ART) as preferred regimen for human immunodeficiency virus management. Large-scale programmatic transitioning to ART was subsequently implemented across Africa, often in absence of recent viral load testing and without access genotypic resistance (GRT) case viremia. Methods This study assessed emerging dolutegravir routine care Viral Load Cohort North-East Lesotho. We...
BK polyomavirus has been linked to urothelial carcinoma in immunosuppressed patients. Here, we performed comprehensive genomic analysis of a polyomavirus-associated, metachronous, multifocal and metastatic micropapillary cancer kidney transplant recipient. Dissecting heterogeneity by sorting technologies prior array-comparative hybridization followed short tandem repeat revealed that the was donor origin (4-year-old male). The top 50 cancer-associated genes showed no key driver mutations as...
Abstract Objectives Detecting severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) is key to the clinical and epidemiological assessment of CoVID‐19. We cross‐validated manual automated high‐throughput testing for SARS‐CoV‐2‐RNA, evaluated SARS‐CoV‐2 loads in nasopharyngeal–oropharyngeal swabs (NOPS), lower fluids, plasma, analyzed detection rates after lockdown relaxation measures. Methods Basel‐S‐gene, Roche‐E‐gene, Roche‐cobas®6800‐Target1 Target2 were prospectively validated 1344...
Background: Since 2019, the World Health Organization has recommended dolutegravir-based antiretroviral therapy (ART) as preferred regimen for all people with HIV. Large-scale programmatic transitioning to ART was subsequently implemented across Africa, often in absence of recent viral load testing and without access genotypic resistance (GRT) case viraemia. Methods: This study aims assess emerging acquired dolutegravir Viral Load Cohort North-East Lesotho (VICONEL). We included participants...
Influenza virus and respiratory syncytial (RSV) detection with short turn-around-time (TAT) is pivotal for rapid decisions regarding treatment infection control. However, negative testing results may come from poor assay sensitivity or influenza-like illnesses caused by other community-acquired viruses (CARVs). We prospectively compared the performance of Cobas Liat A/B RSV (LIAT) our routine multiplexNAT-1 (xTAG Respiratory Pathogen Panel; Luminex) multiplexNAT-2 (ePlex-RPP; GenMark...
Cytomegalovirus (CMV) serostatus and CMV replication are considered as risk factors for inferior graft patient survival after renal transplantation, but long-term outcome data limited. The aim of this retrospective single-centre study was to investigate the impact replication/disease on outcomes in a well-defined cohort managed by standardized prevention/treatment protocol.We investigated 599 consecutive kidney transplantations having prevention protocol consisting either prophylaxis (D+/R-...
Abstract Human papillomavirus (HPV) infections are often asymptomatic, but some of the >200 HPV genotypes confer a high risk for precancerous cervical lesions and cancer. Current clinical management relies on reliable nucleic acid testing detection genotyping. We prospectively compared extraction without with prior centrifugation enrichment detecting genotyping in swabs atypical squamous or glandular cells. Consecutive were analyzed from 45 patients Nucleic acids extracted parallel using...
Many clinical laboratories have replaced virus isolation in cell-culture (VIC) for cytomegalovirus (CMV) by quantitative-nucleic-acid testing (QNAT), rendering clinically relevant CMV-replication difficult to distinguish from CMV-shedding or latent infection. We compared direct VIC 1109 consecutive bronchoalveolar lavage fluids (BALFs) and a well-validated CMV-QNAT (Basel-CMV-UL111a-77bp). In the retrospective Group 1 (N = 694) 2 303), was performed within 48 h 2-fold 10-fold concentrated...
Abstract Background (Val)ganciclovir resistance mutations in CMV UL97 (UL97-GCV-R) complicate anti-CMV therapy recipients of solid organ and hematopoietic stem cell transplants, but comprehensive data on prevalence, emergence, outcome are scarce. Methods Using next-generation sequencing (NGS; Illumina MiSeq platform), we analyzed UL97-GCV-R patients with available plasma samples refractory replication/DNAemia (n = 87) containing viral loads ≥910 IU/mL. Twenty-one DNAemia resolving under...
AIMS OF THE STUDY Combination antiretroviral therapy (cART) has reduced mother-to-child transmissions (MTCT) and improved the prognosis of HIV-infected newborns. However, drug resistance mutations (DRM) in children, either transmitted by MTCT (HIV-tDRM) or selected suboptimal adherence levels (HIV-sDRM), remain a concern. We sought to determine rate HIV-tDRM HIV-sDRM pairs Switzerland. METHODS performed retrospective analysis prospectively collected clinical data available stored samples...
Abstract Background SARS-CoV-2 emerged in China December 2019 as new cause of severe viral pneumonia (CoVID-19) reaching Europe by late January 2020. We validated the WHO-recommended assay and describe epidemiology community-acquired respiratory viruses (CARVs). Methods Naso-oropharyngeal swabs (NOPS) from 7663 individuals were prospectively tested Basel-S-gene WHO-based E-gene-assay (Roche) using Basel-N-gene-assay for confirmation. CARVs 2394 NOPS multiplex-NAT, including 1816 together...
Persistent infection with high-risk human papillomavirus (HPV) is recognized as the main cause for development of anogenital cancers. This study prospectively evaluated diagnostic performance novel Allplex-HPV28 assay Anyplex-II-HPV28 to detect and genotype HPV in 234 consecutive swabs 32 biopsies tract from 265 patients atypical findings cytomorphological screening. Agreement HPV-DNA detection between Anyplex-II assays was 99%. There a notable diversity HPV-virome, most prevalent types...
(Val)ganciclovir resistance mutations (GRMs) in CMV UL97 (UL97-GCV-R) complicate prophylaxis and therapy of solid-organ transplant (SOT) hematopoietic (stem) cell (HCT) recipients, but data on prevalence dynamics are scarce. We investigated UL97-GCV-R using next-generation sequencing (NGS) recipients with refractory DNAemia episodes a control group. Between January 1, 2010–July 16, 2016, 385 were screened for plasma DNAemia. Eighty-seven patients (54 SOT, 33 HCT) available samples had...
Abstract Introduction SARS-CoV-2-detection is critical for clinical and epidemiological assessment of the ongoing CoVID-19 pandemic. Aim To cross-validate manual automated high-throughput (Roche-cobas®6800-Target1/Target2) testing SARS-CoV-2-RNA, to describe detection rates following lockdown relaxation, evaluate SARS-CoV-2-loads in different specimens. Method The validation cohort prospectively compared Basel-S-gene, Roche-E-gene, Roche-cobas®6800-Target1/Target2 1344 naso-oropharyngeal...