Search results - 55 results
Strategy to Develop and Evaluate a Multiplex RT-ddPCR in Response to SARS-CoV-2 Genomic Evolution.
continuously evolving worldwide. In the present study, we proposed a methodology based on an in silico and in vitro analysis. First, we used all information offered by available whole-genome sequencing data for ...
Towards Real-Time and Affordable Strain-Level Metagenomics-Based Foodborne Outbreak Investigations Using Oxford Nanopore Sequencing Technologies
Flongle flow cell, on an extract treated with eukaryotic host DNA removal. Moreover, an alternative approach based on in silico DNA walking allowed to obtain rapid confirmation of the presence of ...
A Bioinformatics Whole-Genome Sequencing Workflow for Clinical Mycobacterium tuberculosis Complex Isolate Analysis, Validated Using a Reference Collection Extensively Characterized with Conventional Methods and In Silico Approaches
single nucleotide polymorphism VALIDATION whole genome sequencing Abstract: The use of whole genome sequencing (WGS) for routine typing of bacterial isolates has increased substantially in recent years. ...
Deepening of In Silico Evaluation of SARS-CoV-2 Detection RT-qPCR Assays in the Context of New Variants
Keersmaecker Source: Genes, Volume 12, Issue 4 (2021) Keywords: SARS-CoV-2; COVID-19; variants; detection; RT-qPCR; in silico specificity evaluation; bioinformatics tool; WGS data; mismatches; primers and probes ...
Identification of flavouring substances of genotoxic concern present in e-cigarette refills
establish a screening strategy to prioritize the flavouring substances of highest concern for human health. In the present study, a prioritization strategy combining analytical screening, in silico tools and ...
Deep amplicon sequencing for culture-free prediction of susceptibility or resistance to 13 anti-tuberculous drugs.
of detection was 100-1000 genome copies for fixed resistance mutations. Deeplex Myc- TB captured in silico 97.1-99.3% of resistance phenotypes correctly predicted by WGS from 3651 MTBC genomes. On 429 ...
Chemical and toxciological characterization of e-liquid cigarettes
quantitative in silico models. In total, potential genotoxicity activity was predicted for 44 flavourings. Based on information from European databases, genotoxicity could be confirmed for five of these ...
New QSAR models to predict chromosome damaging potential based on the in vivo micronucleus test
Emilio Source: Toxicology Letters, Volume 329, Number 84 (2020) Keywords: Chromosome damage genotoxicity In silico model In vivo micronucleus QSAR Abstract: A large number of computer-based prediction ...
Strain-Level Metagenomic Data Analysis of Enriched In Vitro and In Silico Spiked Food Samples: Paving the Way towards a Culture-Free Foodborne Outbreak Investigation Using STEC as a Case Study.
community obtained by in vitro spiking minced meat with a Shiga toxin-producing (STEC) isolate originating from a described outbreak. The more optimal tool Sigma was further evaluated using in silico ...
Use of Whole Genome Sequencing Data for a First in Silico Specificity Evaluation of the RT-qPCR Assays Used for SARS-CoV-2 Detection.
RT-qPCR methods were developed in January 2020 for initial in silico specificity evaluation and to verify whether the targeted loci are highly conserved. Now that more whole genome data have become ...