MixviR: an R package for exploring variation associated with genomic sequence data from environmental SARS-CoV-2 and other mixed microbial samples
MG Sovic, F Savona, Z Bohrerova… - Applied and …, 2022 - Am Soc Microbiol
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)/coronavirus disease
2019 (COVID-19) pandemic has highlighted an important role for efficient surveillance of …
2019 (COVID-19) pandemic has highlighted an important role for efficient surveillance of …
Genome sequencing of sewage detects regionally prevalent SARS-CoV-2 variants
Viral genome sequencing has guided our understanding of the spread and extent of genetic
diversity of SARS-CoV-2 during the COVID-19 pandemic. SARS-CoV-2 viral genomes are …
diversity of SARS-CoV-2 during the COVID-19 pandemic. SARS-CoV-2 viral genomes are …
Tracking SARS-CoV-2 variants of concern in wastewater: an assessment of nine computational tools using simulated genomic data
SG Sutcliffe, SA Kraemer, I Ellmen… - Microbial …, 2024 - microbiologyresearch.org
Wastewater-based surveillance (WBS) is an important epidemiological and public health
tool for tracking pathogens across the scale of a building, neighbourhood, city, or region …
tool for tracking pathogens across the scale of a building, neighbourhood, city, or region …
Longitudinal Sequencing and Variant Detection of SARS-CoV-2 across Southern California Wastewater
JA Rothman, A Saghir, AG Zimmer-Faust… - Applied …, 2024 - mdpi.com
Wastewater-based epidemiology (WBE) is useful for detecting pathogen prevalence and
may serve to effectively monitor diseases across broad scales. WBE has been used …
may serve to effectively monitor diseases across broad scales. WBE has been used …
Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJAC
K Jahn, D Dreifuss, I Topolsky, A Kull… - Nature …, 2022 - nature.com
The continuing emergence of SARS-CoV-2 variants of concern and variants of interest
emphasizes the need for early detection and epidemiological surveillance of novel variants …
emphasizes the need for early detection and epidemiological surveillance of novel variants …
Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques
Effectively monitoring the spread of SARS-CoV-2 mutants is essential to efforts to counter
the ongoing pandemic. Predicting lineage abundance from wastewater, however, is …
the ongoing pandemic. Predicting lineage abundance from wastewater, however, is …
Entourage: all-in-one sequence analysis software for genome assembly, virus detection, virus discovery, and intrasample variation profiling
W Phumiphanjarphak, P Aiewsakun - BMC bioinformatics, 2024 - Springer
Background Pan-virus detection, and virome investigation in general, can be challenging,
mainly due to the lack of universally conserved genetic elements in viruses. Metagenomic …
mainly due to the lack of universally conserved genetic elements in viruses. Metagenomic …
Collaboration between clinical and academic laboratories for sequencing SARS-CoV-2 genomes
Genomic sequencing of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
continues to provide valuable insight into the ever-changing variant makeup of the COVID …
continues to provide valuable insight into the ever-changing variant makeup of the COVID …
[HTML][HTML] High-throughput sequencing of SARS-CoV-2 in wastewater provides insights into circulating variants
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) likely emerged from a
zoonotic spill-over event and has led to a global pandemic. The public health response has …
zoonotic spill-over event and has led to a global pandemic. The public health response has …
MicroGMT: a mutation tracker for SARS-CoV-2 and other microbial genome sequences
With the continued spread of SARS-CoV-2 virus around the world, researchers often need to
quickly identify novel mutations in newly sequenced SARS-CoV-2 genomes for studying the …
quickly identify novel mutations in newly sequenced SARS-CoV-2 genomes for studying the …