Publications by authors named "E Steinig"
Article Synopsis
- Variant calling is crucial for studying bacterial genomics, helping with disease tracking, phylogenetic analysis, and detecting antibiotic resistance.* -
- This study analyzes the accuracy of different variant calling methods using Oxford Nanopore Technologies (ONT) sequencing data across 14 bacterial species, finding that deep learning-based callers like Clair3 and DeepVariant are notably more effective than traditional ones.* -
- The research highlights that ONT sequencing, especially with high accuracy models, can outperform Illumina sequencing in problematic genomic regions, showing promise for use in settings with limited resources.*
Dengue neurological disease is an uncommon yet severe complication of dengue infection. It can manifest as encephalitis, encephalopathy, neuro-ophthalmic complications, or neuromuscular disorders. Severe infection can result in viral shedding across multiple body sites.
View Article and Find Full Text PDFBackground: Whole genome sequencing (WGS) of respiratory viruses from rapid antigen tests (RAT-WGS) is a novel approach to expanding genomic surveillance of respiratory infections. To date however, there are limited data on the genomic stability of these viruses on RATs. In this study, we investigated the effect of storage conditions and nucleic acid preservatives on the ability to enhance stability and improve recovery of respiratory virus genomes from RATs.
View Article and Find Full Text PDFCharacterising HIV-1 transmission in Victoria, Australia: a molecular epidemiological study.
Lancet Reg Health West Pac
June 2024
Background: In Australia the incidence of HIV has declined steadily, yet sustained reduction of HIV transmission in this setting requires improved public health responses. As enhanced public health responses and prioritisation of resources may be guided by molecular epidemiological data, here we aimed to assess the applicability of these approaches in Victoria, Australia.
Methods: A comprehensive collection of HIV-1 sequences from individuals diagnosed with HIV in Victoria, Australia, between January 1st 2000 and December 31st 2020 were deidentified and used as the basis of our assessment.