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72 results

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Page 1
Global diversity and antimicrobial resistance of typhoid fever pathogens: Insights from a meta-analysis of 13,000 Salmonella Typhi genomes.
Carey ME, Dyson ZA, Ingle DJ, Amir A, Aworh MK, Chattaway MA, Chew KL, Crump JA, Feasey NA, Howden BP, Keddy KH, Maes M, Parry CM, Van Puyvelde S, Webb HE, Afolayan AO, Alexander AP, Anandan S, Andrews JR, Ashton PM, Basnyat B, Bavdekar A, Bogoch II, Clemens JD, da Silva KE, De A, de Ligt J, Diaz Guevara PL, Dolecek C, Dutta S, Ehlers MM, Francois Watkins L, Garrett DO, Godbole G, Gordon MA, Greenhill AR, Griffin C, Gupta M, Hendriksen RS, Heyderman RS, Hooda Y, Hormazabal JC, Ikhimiukor OO, Iqbal J, Jacob JJ, Jenkins C, Jinka DR, John J, Kang G, Kanteh A, Kapil A, Karkey A, Kariuki S, Kingsley RA, Koshy RM, Lauer AC, Levine MM, Lingegowda RK, Luby SP, Mackenzie GA, Mashe T, Msefula C, Mutreja A, Nagaraj G, Nagaraj S, Nair S, Naseri TK, Nimarota-Brown S, Njamkepo E, Okeke IN, Perumal SPB, Pollard AJ, Pragasam AK, Qadri F, Qamar FN, Rahman SIA, Rambocus SD, Rasko DA, Ray P, Robins-Browne R, Rongsen-Chandola T, Rutanga JP, Saha SK, Saha S, Saigal K, Sajib MSI, Seidman JC, Shakya J, Shamanna V, Shastri J, Shrestha R, Sia S, Sikorski MJ, Singh A, Smith AM, Tagg KA, Tamrakar D, Tanmoy AM, Thomas M, Thomas MS, Thomsen R, Thomson NR, Tupua S, Vaidya K, Valcanis M, Veeraraghavan B,… See abstract for full author list ➔ Carey ME, et al. Among authors: de ligt j. Elife. 2023 Sep 12;12:e85867. doi: 10.7554/eLife.85867. Elife. 2023. PMID: 37697804 Free PMC article.
Spatial and temporal transmission dynamics of respiratory syncytial virus in New Zealand before and after the COVID-19 pandemic.
Jelley L, Douglas J, O'Neill M, Berquist K, Claasen A, Wang J, Utekar S, Johnston H, Bocacao J, Allais M, de Ligt J, Tan CE, Seeds R, Wood T, Aminisani N, Jennings T, Welch D, Turner N, McIntyre P, Dowell T, Trenholme A, Byrnes C; SHIVERS investigation team; Thomas P, Webby R, French N, Huang QS, Winter D, Geoghegan JL. Jelley L, et al. Among authors: de ligt j. Nat Commun. 2024 Nov 11;15(1):9758. doi: 10.1038/s41467-024-53998-5. Nat Commun. 2024. PMID: 39528493 Free PMC article.
Building pangenome graphs.
Garrison E, Guarracino A, Heumos S, Villani F, Bao Z, Tattini L, Hagmann J, Vorbrugg S, Marco-Sola S, Kubica C, Ashbrook DG, Thorell K, Rusholme-Pilcher RL, Liti G, Rudbeck E, Golicz AA, Nahnsen S, Yang Z, Mwaniki MN, Nobrega FL, Wu Y, Chen H, de Ligt J, Sudmant PH, Huang S, Weigel D, Soranzo N, Colonna V, Williams RW, Prins P. Garrison E, et al. Among authors: de ligt j. Nat Methods. 2024 Nov;21(11):2008-2012. doi: 10.1038/s41592-024-02430-3. Epub 2024 Oct 21. Nat Methods. 2024. PMID: 39433878
Implementing a national programme of pathogen genomics for public health: the Australian Pathogen Genomics Program (AusPathoGen).
Webb JR, Andersson P, Sim E, Zahedi A, Donald A, Hoang T, Watt AE, Agius JE, Donato CM, Cummins ML, Zulfiqar T, Nghiem S, Lin C, Menouhos D, Leong LEX, Baird R, Kennedy K, Cooley L, Speers D, Lim CK, de Ligt J, Ferdinand A, Glass K, Kirk MD, Djordjevic SP, Sloggett C, Horan K, Seemann T, Sintchenko V, Jennison AV, Howden BP; AusPathoGen Program partners. Webb JR, et al. Among authors: de ligt j. Lancet Microbe. 2024 Oct 7:100969. doi: 10.1016/j.lanmic.2024.100969. Online ahead of print. Lancet Microbe. 2024. PMID: 39389079 Free article. Review.
Spatial and temporal transmission dynamics of respiratory syncytial virus in New Zealand before and after the COVID-19 pandemic.
Jelley L, Douglas J, O'Neill M, Berquist K, Claasen A, Wang J, Utekar S, Johnston H, Bocacao J, Allais M, de Ligt J, Ee Tan C, Seeds R, Wood T, Aminisani N, Jennings T, Welch D, Turner N, McIntyre P, Dowell T, Trenholme A, Byrnes C; SHIVERS investigation team; Webby R, French N, Winter D, Huang QS, Geoghegan JL. Jelley L, et al. Among authors: de ligt j. medRxiv [Preprint]. 2024 Jul 16:2024.07.15.24310412. doi: 10.1101/2024.07.15.24310412. medRxiv. 2024. Update in: Nat Commun. 2024 Nov 11;15(1):9758. doi: 10.1038/s41467-024-53998-5 PMID: 39072023 Free PMC article. Updated. Preprint.
Impact of the COVID-19 related border restrictions on influenza and other common respiratory viral infections in New Zealand.
Huang QS, Turner N, Wood T, Anglemyer A, McIntyre P, Aminisani N, Dowell T, Trenholme A, Byrnes C, Balm M, McIntosh C, Jefferies S, Grant CC, Nesdale A, Dobinson HC, Campbell-Stokes P, Daniells K, Geoghegan J, de Ligt J, Jelley L, Seeds R, Jennings T, Rensburg M, Cueto J, Caballero E, John J, Penghulan E, Tan CE, Ren X, Berquist K, O'Neill M, Marull M, Yu C, McNeill A, Kiedrzynski T, Roberts S, McArthur C, Stanley A, Taylor S, Wong C, Lawrence S, Baker MG, Kvalsvig A, Van Der Werff K, McAuliffe G, Antoszewska H, Dilcher M, Fahey J, Werno A, Elvy J, Grant J, Addidle M, Zacchi N, Mansell C, Widdowson MA, Thomas PG; BorderRestrictionImpactOnFluRSV Consortium; Webby RJ. Huang QS, et al. Among authors: de ligt j. Influenza Other Respir Viruses. 2024 Feb;18(2):e13247. doi: 10.1111/irv.13247. Influenza Other Respir Viruses. 2024. PMID: 38350715 Free PMC article.
Building pangenome graphs.
Garrison E, Guarracino A, Heumos S, Villani F, Bao Z, Tattini L, Hagmann J, Vorbrugg S, Marco-Sola S, Kubica C, Ashbrook DG, Thorell K, Rusholme-Pilcher RL, Liti G, Rudbeck E, Nahnsen S, Yang Z, Mwaniki MN, Nobrega FL, Wu Y, Chen H, de Ligt J, Sudmant PH, Soranzo N, Colonna V, Williams RW, Prins P. Garrison E, et al. Among authors: de ligt j. bioRxiv [Preprint]. 2024 Oct 2:2023.04.05.535718. doi: 10.1101/2023.04.05.535718. bioRxiv. 2024. Update in: Nat Methods. 2024 Nov;21(11):2008-2012. doi: 10.1038/s41592-024-02430-3 PMID: 37066137 Free PMC article. Updated. Preprint.
Global disparities in SARS-CoV-2 genomic surveillance.
Brito AF, Semenova E, Dudas G, Hassler GW, Kalinich CC, Kraemer MUG, Ho J, Tegally H, Githinji G, Agoti CN, Matkin LE, Whittaker C; Bulgarian SARS-CoV-2 sequencing group; Communicable Diseases Genomics Network (Australia and New Zealand); COVID-19 Impact Project; Danish Covid-19 Genome Consortium; Fiocruz COVID-19 Genomic Surveillance Network; GISAID core curation team; Network for Genomic Surveillance in South Africa (NGS-SA); Swiss SARS-CoV-2 Sequencing Consortium; Howden BP, Sintchenko V, Zuckerman NS, Mor O, Blankenship HM, de Oliveira T, Lin RTP, Siqueira MM, Resende PC, Vasconcelos ATR, Spilki FR, Aguiar RS, Alexiev I, Ivanov IN, Philipova I, Carrington CVF, Sahadeo NSD, Branda B, Gurry C, Maurer-Stroh S, Naidoo D, von Eije KJ, Perkins MD, van Kerkhove M, Hill SC, Sabino EC, Pybus OG, Dye C, Bhatt S, Flaxman S, Suchard MA, Grubaugh ND, Baele G, Faria NR. Brito AF, et al. Nat Commun. 2022 Nov 16;13(1):7003. doi: 10.1038/s41467-022-33713-y. Nat Commun. 2022. PMID: 36385137 Free PMC article.
72 results