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Genome sequencing

From chip to SNP: Rapid development and evaluation of a targeted capture genotyping-by-sequencing approach to support research and management of a plaguing rodent

Kevin P. Oh, Nikki Van de Weyer, Wendy A. Ruscoe, Steve Henry, Peter R. Brown

published 17 Aug 2023

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Evaluation of an optimized germline exomes pipeline using BWA-MEM2 and Dragen-GATK tools

Nofe Alganmi, Heba Abusamra

published 03 Aug 2023

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Antigen concentration, viral load, and test performance for SARS-CoV-2 in multiple specimen types

Allison Golden, Michelle Oliveira-Silva, Hannah Slater, Alexia Martines Vieira, Pooja Bansil, Emily Gerth-Guyette, Brandon T. Leader, Stephanie Zobrist, Alan Kennedy Braga Ferreira, Erika Crhistina Santos de Araujo, Catherine Duran de Lucena Cruz, Eduardo Garbin, Greg T. Bizilj, Sean J. Carlson, Mariana Sagalovsky, Sampa Pal, Vin Gupta, Leo Wolansky, David S. Boyle, Deusilene Souza Vieira Dall’Acqua, Felipe Gomes Naveca, Valdinete Alves do Nascimento, Juan Miguel Villalobos Salcedo, Paul K. Drain, Alexandre Dias Tavares Costa, Dhélio Pereira, Gonzalo J. Domingo

published 19 Jul 2023

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Rapid genotyping of porcine reproductive and respiratory syndrome virus (PRRSV) using MinION nanopore sequencing

Leonardo Cardia Caserta, Jianqiang Zhang, Pablo Piñeyro, Diego G. Diel

published 23 May 2023

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Chromosome-scale genome sequence assemblies of the ‘Autumn Bliss’ and ‘Malling Jewel’ cultivars of the highly heterozygous red raspberry (Rubus idaeus L.) derived from long-read Oxford Nanopore sequence data

R. Jordan Price, Jahn Davik, Felicidad Fernandéz Fernandéz, Helen J. Bates, Samantha Lynn, Charlotte F. Nellist, Matteo Buti, Dag Røen, Nada Šurbanovski, Muath Alsheikh, Richard J. Harrison, Daniel James Sargent

published 16 May 2023

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Evaluation of miniaturized Illumina DNA preparation protocols for SARS-CoV-2 whole genome sequencing

Sureshnee Pillay, James Emmanuel San, Derek Tshiabuila, Yeshnee Naidoo, Yusasha Pillay, Akhil Maharaj, Ugochukwu J. Anyaneji, Eduan Wilkinson, Houriiyah Tegally, Richard J. Lessells, Cheryl Baxter, Tulio de Oliveira, Jennifer Giandhari

published 26 Apr 2023

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A comprehensive performance analysis of sequence-based within-sample testing NIPT methods

Tom Mokveld, Zaid Al-Ars, Erik A. Sistermans, Marcel Reinders

published 14 Apr 2023

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Optimised protocol for monitoring SARS-CoV-2 in wastewater using reverse complement PCR-based whole-genome sequencing

Harry T. Child, Paul A. O’Neill, Karen Moore, William Rowe, Hubert Denise, David Bass, Matthew J. Wade, Matt Loose, Steve Paterson, Ronny van Aerle, Aaron R. Jeffries

published 14 Apr 2023

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Clonal isolates of Treponema pallidum subsp. pallidum Nichols provide evidence for the occurrence of microevolution during experimental rabbit infection and in vitro culture

Diane G. Edmondson, Bridget D. De Lay, Blake M. Hanson, Lindsay E. Kowis, Steven J. Norris

published 14 Mar 2023

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GAMBIT (Genomic Approximation Method for Bacterial Identification and Tracking): A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification

Jared Lumpe, Lynette Gumbleton, Andrew Gorzalski, Kevin Libuit, Vici Varghese, Tyler Lloyd, Farid Tadros, Tyler Arsimendi, Eileen Wagner, Craig Stephens, Joel Sevinsky, David Hess, Mark Pandori

published 16 Feb 2023

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Cost-conscious generation of multiplexed short-read DNA libraries for whole-genome sequencing

Ashley Jones, David Stanley, Scott Ferguson, Benjamin Schwessinger, Justin Borevitz, Norman Warthmann

published 27 Jan 2023

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Awareness, understanding, and interest in personalized medicine: A cross-sectional survey study of college students

Yingke Xu, Qing Wu

published 25 Jan 2023

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SARS-CoV-2 genotyping and sequencing following a simple and economical RNA extraction and storage protocol

Sarah Hernandez, Phuong-Vi Nguyen, Taz Azmain, Anne Piantadosi, Jesse J. Waggoner

published 19 Jan 2023

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