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Genome sequencing

Evolutionary paths to macrolide resistance in a Neisseria commensal converge on ribosomal genes through short sequence duplications

Jordan C. Raisman, Michael A. Fiore, Lucille Tomin, Joseph K. O. Adjei, Virginia X. Aswad, Jonathan Chu, Christina J. Domondon, Ben A. Donahue, Claudia A. Masciotti, Connor G. McGrath, Jo Melita, Paul A. Podbielski, Madelyn R. Schreiner, Lauren J. Trumpore, Peter C. Wengert, Emalee A. Wrightstone, André O. Hudson, Crista B. Wadsworth

published 13 Jan 2022

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A short plus long-amplicon based sequencing approach improves genomic coverage and variant detection in the SARS-CoV-2 genome

Carlos Arana, Chaoying Liang, Matthew Brock, Bo Zhang, Jinchun Zhou, Li Chen, Brandi Cantarel, Jeffrey SoRelle, Lora V. Hooper, Prithvi Raj

published 13 Jan 2022

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Detection of MDM2 amplification by shallow whole genome sequencing of cell-free DNA of patients with dedifferentiated liposarcoma

Joanna Przybyl, Lien Spans, Kristen Ganjoo, Nam Bui, David Mohler, Jeffrey Norton, George Poultsides, Maria Debiec-Rychter, Matt van de Rijn

published 05 Jan 2022

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Whole-genome based strain identification of fowlpox virus directly from cutaneous tissue and propagated virus

Kinza Asif, Denise O’Rourke, Alistair R. Legione, Pollob Shil, Marc S. Marenda, Amir H. Noormohammadi

published 16 Dec 2021

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Genomic prediction using low-coverage portable Nanopore sequencing

Harrison J. Lamb, Ben J. Hayes, Imtiaz A. S. Randhawa, Loan T. Nguyen, Elizabeth M. Ross

published 15 Dec 2021

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Identification of individual root-knot nematodes using low coverage long-read sequencing

Graham S. Sellers, Daniel C. Jeffares, Bex Lawson, Tom Prior, David H. Lunt

published 01 Dec 2021

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Return of individual research results from genomic research: A systematic review of stakeholder perspectives

Danya F. Vears, Joel T. Minion, Stephanie J. Roberts, James Cummings, Mavis Machirori, Mwenza Blell, Isabelle Budin-Ljøsne, Lorraine Cowley, Stephanie O. M. Dyke, Clara Gaff, Robert Green, Alison Hall, Amber L. Johns, Bartha M. Knoppers, Stephanie Mulrine, Christine Patch, Eva Winkler, Madeleine J. Murtagh

published 08 Nov 2021

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Direct sequencing of measles virus complete genomes in the midst of a large-scale outbreak

Efrat Bucris, Victoria Indenbaum, Roberto Azar, Oran Erster, Eric Haas, Ella Mendelson, Neta S. Zuckerman

published 10 Sep 2021

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Oligonucleotide capture sequencing of the SARS-CoV-2 genome and subgenomic fragments from COVID-19 individuals

Harsha Doddapaneni, Sara Javornik Cregeen, Richard Sucgang, Qingchang Meng, Xiang Qin, Vasanthi Avadhanula, Hsu Chao, Vipin Menon, Erin Nicholson, David Henke, Felipe-Andres Piedra, Anubama Rajan, Zeineen Momin, Kavya Kottapalli, Kristi L. Hoffman, Fritz J. Sedlazeck, Ginger Metcalf, Pedro A. Piedra, Donna M. Muzny, Joseph F. Petrosino, Richard A. Gibbs

published 25 Aug 2021

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Prolonged detection of complete viral genomes demonstrated by SARS-CoV-2 sequencing of serial respiratory specimens

Neta S. Zuckerman, Efrat Bucris, Oran Erster, Michal Mandelboim, Amos Adler, Saar Burstein, Noam Protter, Moran Szwarcwort-Cohen, Ella Mendelson, Orna Mor

published 05 Aug 2021

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Molecular epidemiology of SARS-CoV-2 in Cyprus

Jan Richter, Pavlos Fanis, Christina Tryfonos, Dana Koptides, George Krashias, Stavros Bashiardes, Andreas Hadjisavvas, Maria Loizidou, Anastasis Oulas, Denise Alexandrou, Olga Kalakouta, Mihalis I. Panayiotidis, George M. Spyrou, Christina Christodoulou

published 21 Jul 2021

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High-molecular weight DNA extraction, clean-up and size selection for long-read sequencing

Ashley Jones, Cynthia Torkel, David Stanley, Jamila Nasim, Justin Borevitz, Benjamin Schwessinger

published 15 Jul 2021

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Whole genome sequencing identifies novel structural variant in a large Indian family affected with X-linked agammaglobulinemia

Abhinav Jain, Geeta Madathil Govindaraj, Athulya Edavazhippurath, Nabeel Faisal, Rahul C. Bhoyar, Vishu Gupta, Ramya Uppuluri, Shiny Padinjare Manakkad, Atul Kashyap, Anoop Kumar, Mohit Kumar Divakar, Mohamed Imran, Sneha Sawant, Aparna Dalvi, Krishnan Chakyar, Manisha Madkaikar, Revathi Raj, Sridhar Sivasubbu, Vinod Scaria

published 12 Jul 2021

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