Rapid metagenomic characterization of a case of imported COVID-19 in Cambodia
Manning, J. E.; Bohl, J. A.; Lay, S.; Chea, S.; Ly, S.; Sengdoeurn, Y.; Heng, S.; Vuthy, C.; Kalantar, K.; Ahyong, V.; Tan, M.; Sheu, J.; Tato, C. M.; DeRisi, J.; Baril, L.; Dussart, P.; Duong, V.; Karlsson, E. A.
Show abstract
Rapid production and publication of pathogen genome sequences during emerging disease outbreaks provide crucial public health information. In resource-limited settings, especially near an outbreak epicenter, conventional deep sequencing or bioinformatics are often challenging. Here we successfully used metagenomic next generation sequencing on an iSeq100 Illumina platform paired with an open-source bioinformatics pipeline to quickly characterize Cambodias first case of COVID-2019.
Matching journals
The top 10 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Targeted Hybridization Capture of SARS-CoV-2 and Metagenomics Enables Genetic Variant Discovery and Nasal Microbiome Insights 94%
- UltraSEQ: a universal bioinformatic platform for information-based clinical metagenomics and beyond 93%
- Cerebrospinal fluids from healthy pregnant women does not harbor a detectable microbial community 93%
Similar papers in this journal
- Performance of COVIDSeq and Swift normalase amplicon SARS-CoV-2 panels for SARS-CoV-2 Genomes Sequencing: Practical Guide and Combining FASTQ Strategy 93%
- The clinical utility of two high-throughput 16S rRNA gene sequencing workflows for taxonomic assignment of unidentifiable bacterial pathogens in MALDI-TOF MS 93%
- Rapid, High-Throughput, Cost Effective Whole Genome Sequencing of SARS-CoV-2 Using a Condensed One Hour Library Preparation of the Illumina DNA Prep Kit 93%
Similar papers in this journal
- Origin of imported SARS-CoV-2 strains in The Gambia identified from whole genome sequences 95%
- Origin of imported SARS-CoV-2 strains in The Gambia identified from Whole Genome Sequences. 95%
- High throughput SARS-CoV-2 variant analysis using molecular barcodes coupled with Next Generation Sequencing 94%
Similar papers in this journal
- Draft Genome Sequence of Candida auris Strain LOM, a Human Clinical Isolate from Greater Metropolitan Houston, Texas 90%
- Characterization of Coxsackievirus A20 from a child with acute flaccid paralysis in Nigeria 89%
- Genome sequencing of the first SARS-CoV-2 reported from patients with COVID-19 in Ecuador. 88%
Similar papers in this journal
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.