Identification of SARS-CoV-2 variants using viral sequencing for the Centers for Disease Control and Prevention genomic surveillance program

C Goswami, M Sheldon, C Bixby, M Keddache… - BMC infectious …, 2022 - Springer
Abstract Background The Centers for Disease Control and Prevention contracted with
laboratories to sequence the SARS-CoV-2 genome from positive samples across the United …

Comparison of iSeq and MiSeq as the two platforms for 16S rRNA sequencing in the study of the gut of rat microbiome

D Salamon, B Zapała, A Krawczyk… - Applied Microbiology …, 2022 - Springer
Amplicon-based next-generation sequencing (NGS) of the 16S ribosomal RNA (16S)
regions is a culture-free method used to identify and analyze Procaryota occurring within a …

Evaluation of next generation sequencing approaches for SARS-CoV-2

V Curini, M Ancora, L Jurisic, V Di Lollo, B Secondini… - Heliyon, 2023 - cell.com
Within public health control strategies for SARS-CoV-2, whole genome sequencing (WGS) is
essential for tracking viral spread and monitoring the emergence of variants which may …

Next Generation Sequencing: Latent Applications in Clinical Diagnostics with the advent of Bioinformatic Frameworks

P Thapliyal, V Sah, I Rautela, M Joshi, S Tyagi… - … -Research and Practice, 2024 - Elsevier
Abstract For the past 3-4 decades, the discovery of Sanger's method of pyrosequencing was
the only method unparalleled till 2005 being employed as a method of whole genome …

Development of pathophysiologically relevant models of sickle cell disease and β-thalassemia for therapeutic studies

P Gupta, SG Goswami, G Kumari… - Nature …, 2024 - nature.com
Ex vivo cellular system that accurately replicates sickle cell disease and β-thalassemia
characteristics is a highly sought-after goal in the field of erythroid biology. In this study, we …

Performance of COVIDSeq and Swift Normalase Amplicon SARS-CoV-2 panels for SARS-CoV-2 genome sequencing: practical guide and combining FASTQ strategy

H Choi, M Hwang, DH Navarathna, J Xu… - Journal of Clinical …, 2022 - Am Soc Microbiol
Along with real-time reverse transcriptase PCR (RT-PCR) diagnostic testing, whole-genomic
sequencing (WGS) of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has …

High throughput SARS-CoV-2 genome sequencing from 384 respiratory samples using the Illumina COVIDSeq protocol

N Papa Mze, I Kacel, M Beye, R Tola, M Sarr, L Basco… - Genes, 2023 - mdpi.com
The emergence of the Coronavirus Disease 2019 (COVID-19) pandemic has fostered the
use of high-throughput techniques to sequence the entire severe acute respiratory …

Accurate Detection of SARS-CoV-2 by Next-Generation Sequencing in Low Viral Load Specimens

M Ilié, J Benzaquen, V Hofman, E Long-Mira… - International Journal of …, 2023 - mdpi.com
As new SARS-CoV-2 variants emerge, there is an urgent need to increase the efficiency and
availability of viral genome sequencing, notably to detect the lineage in samples with a low …

[HTML][HTML] Optimizing the Illumina COVIDSeq laboratorial and bioinformatics pipeline on thousands of samples for SARS-CoV-2 Variants of Concern tracking

S Donzelli, L Ciuffreda, M Pontone, M Betti… - Computational and …, 2022 - Elsevier
Abstract The SARS-CoV-2 Variants of Concern tracking via Whole Genome Sequencing
represents a pillar of public health measures for the containment of the pandemic. The ability …

[HTML][HTML] Evaluation of Illumina® COVIDSeq™ as a tool for Omicron SARS-CoV-2 characterisation

K Lowry, MJ Bauer, C Buckley, C Wang… - Journal of Virological …, 2023 - Elsevier
The continued emergence and transmission of severe acute respiratory syndrome
coronavirus 2 (SARS-CoV-2) variants requires ongoing genetic surveillance to support …