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Genome sequencing

Whole genome sequencing of Clostridioides difficile PCR ribotype 046 suggests transmission between pigs and humans

Anders Werner, Paula Mölling, Anna Fagerström, Fredrik Dyrkell, Dimitrios Arnellos, Karin Johansson, Martin Sundqvist, Torbjörn Norén

published 21 Dec 2020

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Taxonomic classification of strain PO100/5 shows a broader geographic distribution and genetic markers of the recently described Corynebacterium silvaticum

Marcus Vinicius Canário Viana, Rodrigo Profeta, Alessandra Lima da Silva, Raquel Hurtado, Janaína Canário Cerqueira, Bruna Ferreira Sampaio Ribeiro, Marcelle Oliveira Almeida, Francielly Morais-Rodrigues, Siomar de Castro Soares, Manuela Oliveira, Luís Tavares, Henrique Figueiredo, Alice Rebecca Wattam, Debmalya Barh, Preetam Ghosh, Artur Silva, Vasco Azevedo

published 21 Dec 2020

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Bioinformatics in Mexico: A diagnostic from the academic perspective and recommendations for a public policy

Dagoberto Armenta-Medina, Christian Díaz de León-Castañeda, Brenda Valderrama-Blanco

published 15 Dec 2020

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A haplotype-phased genome of wheat stripe rust pathogen Puccinia striiformis f. sp. tritici, race PST-130 from the Western USA

Hans Vasquez-Gross, Sukhwinder Kaur, Lynn Epstein, Jorge Dubcovsky

published 11 Nov 2020

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Investigating hospital Mycobacterium chelonae infection using whole genome sequencing and hybrid assembly

Christopher H. Gu, Chunyu Zhao, Casey Hofstaedter, Pablo Tebas, Laurel Glaser, Robert Baldassano, Kyle Bittinger, Lisa M. Mattei, Frederic D. Bushman

published 09 Nov 2020

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The major satellite DNA families of the diploid Chenopodium album aggregate species: Arguments for and against the “library hypothesis”

Alexander Belyayev, Michaela Jandová, Jiřina Josefiová, Ruslan Kalendar, Václav Mahelka, Bohumil Mandák, Karol Krak

published 27 Oct 2020

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A comparative study of single nucleotide variant detection performance using three massively parallel sequencing methods

Linea Christine Trudsø, Jeppe Dyrberg Andersen, Stine Bøttcher Jacobsen, Sofie Lindgren Christiansen, Clàudia Congost-Teixidor, Marie-Louise Kampmann, Niels Morling

published 28 Sep 2020

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Disentangling primer interactions improves SARS-CoV-2 genome sequencing by multiplex tiling PCR

Kentaro Itokawa, Tsuyoshi Sekizuka, Masanori Hashino, Rina Tanaka, Makoto Kuroda

published 18 Sep 2020

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Shiny-SoSV: A web-based performance calculator for somatic structural variant detection

Tingting Gong, Vanessa M. Hayes, Eva K. F. Chan

published 27 Aug 2020

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Non-invasive prenatal testing (NIPT) by low coverage genomic sequencing: Detection limits of screened chromosomal microdeletions

Marcel Kucharik, Andrej Gnip, Michaela Hyblova, Jaroslav Budis, Lucia Strieskova, Maria Harsanyova, Ondrej Pös, Zuzana Kubiritova, Jan Radvanszky, Gabriel Minarik, Tomas Szemes

published 26 Aug 2020

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ShAn: An easy-to-use tool for interactive and integrated variant annotation

Venkat Subramaniam Rathinakannan, Hannu-Pekka Schukov, Samuel Heron, Johanna Schleutker, Csilla Sipeky

published 07 Jul 2020

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Genomic analyses of multidrug-resistant Salmonella Indiana, Typhimurium, and Enteritidis isolates using MinION and MiSeq sequencing technologies

Zhao Chen, Dai Kuang, Xuebin Xu, Narjol González-Escalona, David L. Erickson, Eric Brown, Jianghong Meng

published 02 Jul 2020

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Isolation of a novel species in the genus Cupriavidus from a patient with sepsis using whole genome sequencing

Oh Joo Kweon, Yong Kwan Lim, Hye Ryoun Kim, Tae-Hyoung Kim, Sung-min Ha, Mi-Kyung Lee

published 13 May 2020

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