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Genome sequencing

Analysing genome sequences and associated metadata during the COVID-19 pandemic in Iraq revealed points to be improved: An observational retrospective study

Ali Hadi Abbas, Aoula Al-Zebeeby, Mohammed Al-Saadi, Ahmed Jasim Neamah

published 30 Jun 2025

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TBpore cluster: A novel phylogenetic pipeline for tuberculosis transmission studies using nanopore next-generation sequencing data

Sophie Gagnon, Emmanuelle Ametepe, Floriane Point, William Cloutier Charette, Arpita Chakravarti, Paul Rivest, Pierre-Marie Akochy, Hafid Soualhine, Zamin Iqbal, Michael B. Hall, Simon Grandjean Lapierre

published 16 Jun 2025

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MAGNET-seq: A tandem PCR and hybrid capture method for enhanced target enrichment

Dongin Lee, Taehoon Kim, Duhee Bang

published 04 Jun 2025

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Characterization and whole genome sequencing of Saccharomyces cerevisiae strains lacking several amino acid transporters: Tools for studying amino acid transport

Unnati Sonawala, Aymeric Busidan, David Haak, Guillaume Pilot

published 30 Apr 2025

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Rapidly obtaining genome sequence of Severe Fever with Thrombocytopenia Syndrome virus directly from clinical serum specimen using long amplicon based nanopore sequencing workflow

Tingting Tian, Yanhan Wen, Liping Gao, Tiezhu Liu, Xiaoxia Huang, Chuan Li, Shanshan Du, Hao Li, Meijun Guo, Jiandong Li, Shiwen Wang, Dexin Li, Aqian Li, Mifang Liang

published 25 Apr 2025

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Insights into the implementation of a whole genome sequencing report form (SRF) to reduce nosocomial SARS-CoV-2 in UK hospitals within an unfolding pandemic: A qualitative process evaluation using normalisation process theory

Ruth Leiser, Julie McLeod, Fiona Mapp, Oliver Stirrup, James Blackstone, Christopher J.R. Illingworth, Gaia Nebbia, James R. Price, Luke B. Snell, Tranprit Saluja, Judith Breuer, Paul Flowers

published 17 Apr 2025

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A CACTA-like transposon in the Anthocyanidin synthase 1 (Ans-1) gene is responsible for apricot fruit colour in the raspberry (Rubus idaeus) cultivar ‘Varnes’

Daniel James Sargent, Matteo Buti, Stefan Martens, Claudio Pugliesi, Kjersti Aaby, Dag Røen, Chandra Bhan Yadav, Felicidad Fernández Fernández, Muath Alsheikh, Jahn Davik, R. Jordan Price

published 03 Feb 2025

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Unique North American isolates of severe metastatic hypervirulent Klebsiella pneumoniae strain infections with hepatic abscesses seen in young patients within Texas

Junaid M. Alam, Eric N. Riha, Haris Ahmed, Hong M. Thai, Kevin Garnepudi, Ramesh B. Kesavan, Gnananandh Jayaraman, Anna Sangster, Dylan Curry, Heidi A. Butz, Lori Smith, Maureen Vowles, Kelly F. Oakeson, Erin L. Young, Siva T. Sarva

published 03 Feb 2025

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Deciphering mixed infections by plant RNA virus and reconstructing complete genomes simultaneously present within-host

Martine Bangratz, Aurore Comte, Estelle Billard, Abdoul Kader Guigma, Guillaume Gandolfi, Abalo Itolou Kassankogno, Drissa Sérémé, Nils Poulicard, Charlotte Tollenaere

published 14 Jan 2025

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Clonal phylogenies inferred from bulk, single cell, and spatial transcriptomic analysis of epithelial cancers

Andrew Erickson, Sandy Figiel, Timothy Rajakumar, Srinivasa Rao, Wencheng Yin, Dimitrios Doultsinos, Anette Magnussen, Reema Singh, Ninu Poulose, Richard J. Bryant, Olivier Cussenot, Freddie C. Hamdy, Dan Woodcock, Ian G. Mills, Alastair D. Lamb

published 03 Jan 2025

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Whole genome sequences of nine Taylorella equigenitalis strains isolated in the Czech Republic between 1982–2021: Molecular dating suggests a common ancestor at the time of Roman Empire

Matěj Hrala, Petr Andrla, Juraj Bosák, Pavla Fedrová, Amir Mugutdinov, Renata Karpíšková, Kateřina Nedbalcová, Jitka Raichová, Martin Faldyna, Petr Hořín, David Šmajs

published 03 Jan 2025

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MetaCONNET: A metagenomic polishing tool for long-read assemblies

Bingru Sun, Jian Guo, Hao Jin, Zijie Jin, Yaping Sun, Yuanchen Mao, Fuli Xie, Yun He, Zhihong Sun, Wei Li, Igor Ivanov, Hui Tian

published 03 Dec 2024

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Comparative analysis of whole exome sequencing kits for the canine genome

Jinhee Jang, Yong-Jik Lee, Soohyun Ko, A. M. Abd El-Aty, Ibrahim Gecili, Ji Hoon Jeong, ChangHyuk Kwon, Tae Woo Jung

published 04 Nov 2024

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