BulkVis: a graphical viewer for Oxford nanopore bulk FAST5 files
Payne, Alexander, Holmes, Nadine, Rakyan, Vardhman, Loose, Matthew
Published in Bioinformatics (Oxford, England) (01.07.2019)
Published in Bioinformatics (Oxford, England) (01.07.2019)
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Journal Article
Telomere-to-telomere assembly of a complete human X chromosome
Miga, Karen H, Koren, Sergey, Rhie, Arang, Vollger, Mitchell R, Gershman, Ariel, Bzikadze, Andrey, Brooks, Shelise, Howe, Edmund, Porubsky, David, Logsdon, Glennis A, Schneider, Valerie A, Potapova, Tamara, Wood, Jonathan, Chow, William, Armstrong, Joel, Fredrickson, Jeanne, Pak, Evgenia, Tigyi, Kristof, Kremitzki, Milinn, Markovic, Christopher, Maduro, Valerie, Dutra, Amalia, Bouffard, Gerard G, Chang, Alexander M, Hansen, Nancy F, Wilfert, Amy B, Thibaud-Nissen, Françoise, Schmitt, Anthony D, Belton, Jon-Matthew, Selvaraj, Siddarth, Dennis, Megan Y, Soto, Daniela C, Sahasrabudhe, Ruta, Kaya, Gulhan, Quick, Josh, Loman, Nicholas J, Holmes, Nadine, Loose, Matthew, Surti, Urvashi, Risques, Rosa Ana, Graves Lindsay, Tina A, Fulton, Robert, Hall, Ira, Paten, Benedict, Howe, Kerstin, Timp, Winston, Young, Alice, Mullikin, James C, Pevzner, Pavel A, Gerton, Jennifer L, Sullivan, Beth A, Eichler, Evan E, Phillippy, Adam M
Published in Nature (London) (03.09.2020)
Published in Nature (London) (03.09.2020)
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Journal Article
The Impact of Real-Time Whole-Genome Sequencing in Controlling Healthcare-Associated SARS-CoV-2 Outbreaks
Francis, Rodric V, Billam, Harriet, Clarke, Mitch, Yates, Carl, Tsoleridis, Theocharis, Berry, Louise, Mahida, Nikunj, Irving, William L, Moore, Christopher, Holmes, Nadine, Ball, Jonathan K, Loose, Matthew, McClure, C Patrick
Published in The Journal of infectious diseases (05.01.2022)
Published in The Journal of infectious diseases (05.01.2022)
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Journal Article
Stat3 oxidation-dependent regulation of gene expression impacts on developmental processes and involves cooperation with Hif-1α
Grillo, Michela, Palmer, Carolyn, Holmes, Nadine, Sang, Fei, Larner, Andrew C, Bhosale, Rahul, Shaw, Peter E
Published in PloS one (17.12.2020)
Published in PloS one (17.12.2020)
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Journal Article
Genetic variation at mouse and human ribosomal DNA influences associated epigenetic states
Rodriguez-Algarra, Francisco, Seaborne, Robert A E, Danson, Amy F, Yildizoglu, Selin, Yoshikawa, Harunori, Law, Pui Pik, Ahmad, Zakaryya, Maudsley, Victoria A, Brew, Ama, Holmes, Nadine, Ochôa, Mateus, Hodgkinson, Alan, Marzi, Sarah J, Pradeepa, Madapura M, Loose, Matthew, Holland, Michelle L, Rakyan, Vardhman K
Published in Genome Biology (14.02.2022)
Published in Genome Biology (14.02.2022)
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Journal Article
NANOG is required to establish the competence for germ-layer differentiation in the basal tetrapod axolotl
Simpson, Luke A, Crowley, Darren, Forey, Teri, Acosta, Helena, Ferjentsik, Zoltan, Chatfield, Jodie, Payne, Alexander, Simpson, Benjamin S, Redwood, Catherine, Dixon, James E, Holmes, Nadine, Sang, Fei, Alberio, Ramiro, Loose, Matthew, Johnson, Andrew D
Published in PLoS biology (14.06.2023)
Published in PLoS biology (14.06.2023)
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Journal Article
Sub-Optimal Paternal Diet at the Time of Mating Disrupts Maternal Adaptations to Pregnancy in the Late Gestation Mouse
Khoshkerdar, Afsaneh, Eid, Nader, Batra, Vipul, Baker, Nichola, Holmes, Nadine, Henson, Sonal, Sang, Fei, Wright, Victoria, McLaren, Jane, Shakesheff, Kevin, Woad, Kathryn J., Morgan, Hannah L., Watkins, Adam J.
Published in Nutrients (14.06.2024)
Published in Nutrients (14.06.2024)
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Journal Article
A framework for real-time monitoring, analysis and adaptive sampling of viral amplicon nanopore sequencing
Munro, Rory, Holmes, Nadine, Moore, Christopher, Carlile, Matthew, Payne, Alexander, Tyson, John R, Williams, Thomas, Alder, Christopher, Snell, Luke B, Nebbia, Gaia, Santos, Roberto, Loose, Matt
Published in Frontiers in genetics (27.03.2023)
Published in Frontiers in genetics (27.03.2023)
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Journal Article
Identifying Likely Transmission Pathways within a 10-Year Community Outbreak of Tuberculosis by High-Depth Whole Genome Sequencing
Outhred, Alexander C, Holmes, Nadine, Sadsad, Rosemarie, Martinez, Elena, Jelfs, Peter, Hill-Cawthorne, Grant A, Gilbert, Gwendolyn L, Marais, Ben J, Sintchenko, Vitali
Published in PloS one (03.03.2016)
Published in PloS one (03.03.2016)
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Journal Article
Use of Bulk Segregant Analysis for Determining the Genetic Basis of Azole Resistance in the Opportunistic Pathogen Aspergillus fumigatus
Ashton, George D, Sang, Fei, Blythe, Martin, Zadik, Daniel, Holmes, Nadine, Malla, Sunir, Camps, Simone M T, Wright, Victoria, Melchers, Willem J G, Verweij, Paul E, Dyer, Paul S
Published in Frontiers in cellular and infection microbiology (05.04.2022)
Published in Frontiers in cellular and infection microbiology (05.04.2022)
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Journal Article
Paternal low protein diet perturbs inter-generational metabolic homeostasis in a tissue-specific manner in mice
Morgan, Hannah L., Furse, Samuel, Dias, Irundika H. K., Shabir, Kiran, Castellanos, Marcos, Khan, Iqbal, May, Sean T., Holmes, Nadine, Carlile, Matthew, Sang, Fei, Wright, Victoria, Koulman, Albert, Watkins, Adam J.
Published in Communications biology (08.09.2022)
Published in Communications biology (08.09.2022)
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Journal Article
The genome sequence of the European golden eagle, Aquila chrysaetos chrysaetos Linnaeus 1758
Mead, Dan, Ogden, Rob, Meredith, Anna, Peniche, Gabriela, Smith, Michelle, Corton, Craig, Oliver, Karen, Skelton, Jason, Betteridge, Emma, Doulcan, Jale, Holmes, Nadine, Wright, Victoria, Loose, Matt, Quail, Michael A., McCarthy, Shane A., Howe, Kerstin, Chow, William, Torrance, James, Collins, Joanna, Challis, Richard, Durbin, Richard, Blaxter, Mark
Published in Wellcome open research (2021)
Published in Wellcome open research (2021)
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Journal Article
Readfish enables targeted nanopore sequencing of gigabase-sized genomes
Payne, Alexander, Holmes, Nadine, Clarke, Thomas, Munro, Rory, Debebe, Bisrat J, Loose, Matthew
Published in Nature biotechnology (01.04.2021)
Published in Nature biotechnology (01.04.2021)
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Journal Article
minoTour, real-time monitoring and analysis for nanopore sequencers
Munro, Rory, Santos, Roberto, Payne, Alexander, Forey, Teri, Osei, Solomon, Holmes, Nadine, Loose, Matthew
Published in Bioinformatics (27.01.2022)
Published in Bioinformatics (27.01.2022)
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Journal Article
Stat3 oxidation-dependent regulation of gene expression impacts on developmental processes and involves cooperation with Hif-1[alpha]
Grillo, Michela, Palmer, Carolyn, Holmes, Nadine, Sang, Fei, Larner, Andrew C, Bhosale, Rahul, Shaw, Peter E
Published in PloS one (17.12.2020)
Published in PloS one (17.12.2020)
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Journal Article
The sex-specific impact of sub-optimal paternal diet on the placental transcriptome in mice
Morgan, Hannah L., Sang, Fei, Holmes, Nadine, Wright, Victoria, Watkins, Adam J.
Published in Placenta (Eastbourne) (01.09.2021)
Published in Placenta (Eastbourne) (01.09.2021)
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Journal Article
It Is Not All about Single Nucleotide Polymorphisms: Comparison of Mobile Genetic Elements and Deletions in Listeria monocytogenes Genomes Links Cases of Hospital-Acquired Listeriosis to the Environmental Source
Wang, Qinning, Holmes, Nadine, Martinez, Elena, Howard, Peter, Hill-Cawthorne, Grant, Sintchenko, Vitali
Published in Journal of clinical microbiology (01.11.2015)
Published in Journal of clinical microbiology (01.11.2015)
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Journal Article
Utility of wastewater genomic surveillance compared to clinical surveillance to track the spread of the SARS-CoV-2 Omicron variant across England
Brunner, Franziska S., Payne, Alexander, Cairns, Edward, Airey, George, Gregory, Richard, Pickwell, Natalie D., Wilson, Myles, Carlile, Matthew, Holmes, Nadine, Hill, Verity, Child, Harry, Tomlinson, Jasmine, Ahmed, Suhel, Denise, Hubert, Rowe, William, Frazer, Jacob, Aerle, Ronny van, Evens, Nicholas, Porter, Jonathan, Templeton, Kate, Jeffries, Aaron R., Loose, Matt, Paterson, Steve
Published in Water research (Oxford) (01.12.2023)
Published in Water research (Oxford) (01.12.2023)
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