Article

Development of a nextflow bioinformatics pipeline for the detection of SARS-CoV-2 co-infection cases from genomic surveillance in the Philippines

2024-07-05

Abstract excerpt

<h4>ABSTRACT</h4> Co-infection with multiple SARS-CoV-2 variants, though rare, may have clinical and public health implications, including facilitating variant recombination. Early detection of co-infections is therefore crucial. In this study, we report two probable cases of co-infection identified during routine genomic surveillance. Initially suspected as cross-contamination due to the presence of private mutat...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: c892ee13-e28b-533c-8356-59a4ad0f6290
DOI: 10.1101/2024.07.03.24309627

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Development of a nextflow bioinformatics pipeline for the detection of SARS-CoV-2 co-infection cases from genomic surveillance in the PhilippinesDOI 10.1101/2024.07.03.24309627Read

Integration of bioinformatic tools for the detection of SARS-CoV-2 co-infection cases.Semantic proximity Read

Detection and prevalence of SARS-CoV-2 co-infections during the Omicron variant circulation, France, December 2021 - February 2022Semantic proximity Read

Metagenomic pipeline for identifying co-infections among distinct SARS-CoV-2 variants of concern: Study cases from Alpha to OmicronSemantic proximity Read

Metagenomic pipeline for identifying co-infections among distinct SARS-CoV-2 variants of concern: study cases from Alpha to Omicron.Semantic proximity Read

Systematic detection of co-infection and intra-host recombination in more than 2 million global SARS-CoV-2 samples.Semantic proximity Read

Characteristics of SARS-CoV-2 variants and potential co-infected pathogens in hospitalized patients based on metagenomic next-generation sequencingSemantic proximity Read

Evidence of co-infections during Delta and Omicron SARS-CoV-2 variants co-circulation through prospective screening and sequencingSemantic proximity Read

Characteristics of SARS-CoV-2 variants and potential co-infected pathogens in hospitalized patients based on metagenomic next-generation sequencingSemantic proximity Read

SARS-CoV-2 genomic surveillance enables the identification of Delta/Omicron co-infections in ArgentinaSemantic proximity Read

Genomic evidence for divergent co-infections of co-circulating SARS-CoV-2 lineagesSemantic proximity Read

SARS-CoV-2 and co-infections detection in nasopharyngeal throat swabs of COVID-19 patients by metagenomicsSemantic proximity Read

A metagenomics workflow for SARS-CoV-2 identification, co-pathogen detection, and overall diversitySemantic proximity Read