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Putting everything in its place: using the INSDC compliant Pathogen Data Object Model to better structure genomic data submitted for public health applications.
Timme RE, Karsch-Mizrachi I, Waheed Z, Arita M, MacCannell D, Maguire F, Petit Iii R, Page AJ, Mendes CI, Nasar MI, Oluniyi P, Tyler AD, Raphenya AR, Guthrie JL, Olawoye I, Rinck G, O'Cathail C, Lees J, Cochrane G, Cummins C, Brister JR, Klimke W, Feldgarden M, Griffiths E. Timme RE, et al. Among authors: cochrane g. Microb Genom. 2023 Dec;9(12):001145. doi: 10.1099/mgen.0.001145. Microb Genom. 2023. PMID: 38085797 Free PMC article.
Mobilisation and analyses of publicly available SARS-CoV-2 data for pandemic responses.
Rahman N, O'Cathail C, Zyoud A, Sokolov A, Oude Munnink B, Grüning B, Cummins C, Amid C, Nieuwenhuijse DF, Visontai D, Yuan DY, Gupta D, Prasad DK, Gulyás GM, Rinck G, McKinnon J, Rajan J, Knaggs J, Skiby JE, Stéger J, Szarvas J, Gueye K, Papp K, Hoek M, Kumar M, Ventouratou MA, Bouquieaux MC, Koliba M, Mansurova M, Haseeb M, Worp N, Harrison PW, Leinonen R, Thorne R, Selvakumar S, Hunt S, Venkataraman S, Jayathilaka S, Cezard T, Maier W, Waheed Z, Iqbal Z, Aarestrup FM, Csabai I, Koopmans M, Burdett T, Cochrane G. Rahman N, et al. Among authors: cochrane g. Microb Genom. 2024 Feb;10(2):001188. doi: 10.1099/mgen.0.001188. Microb Genom. 2024. PMID: 38358325 Free PMC article.
Identification of mutations in SARS-CoV-2 PCR primer regions.
Mentes A, Papp K, Visontai D, Stéger J; VEO Technical Working Group; Csabai I, Medgyes-Horváth A, Pipek OA. Mentes A, et al. Sci Rep. 2022 Nov 4;12(1):18651. doi: 10.1038/s41598-022-21953-3. Sci Rep. 2022. PMID: 36333366 Free PMC article.
Corneal pannus, Herbert's pits and conjunctival inflammation in older children in Papua New Guinea.
Cochrane GM, Mangot M, Houinei W, Susapu M, Cama A, Le Mesurier R, Webster S, Hillgrove T, Barton J, Butcher R, Harding-Esch EM, Mabey D, Bakhtiari A, Müller A, Yajima A, Solomon AW, Kaldor J, Koim SP, Ko R, Garap J. Cochrane GM, et al. Ophthalmic Epidemiol. 2024 Feb 8:1-8. doi: 10.1080/09286586.2023.2273507. Online ahead of print. Ophthalmic Epidemiol. 2024. PMID: 38329811
The European Nucleotide Archive in 2023.
Yuan D, Ahamed A, Burgin J, Cummins C, Devraj R, Gueye K, Gupta D, Gupta V, Haseeb M, Ihsan M, Ivanov E, Jayathilaka S, Kadhirvelu VB, Kumar M, Lathi A, Leinonen R, McKinnon J, Meszaros L, O'Cathail C, Ouma D, Paupério J, Pesant S, Rahman N, Rinck G, Selvakumar S, Suman S, Sunthornyotin Y, Ventouratou M, Vijayaraja S, Waheed Z, Woollard P, Zyoud A, Burdett T, Cochrane G. Yuan D, et al. Among authors: cochrane g. Nucleic Acids Res. 2024 Jan 5;52(D1):D92-D97. doi: 10.1093/nar/gkad1067. Nucleic Acids Res. 2024. PMID: 37956313 Free PMC article.
Predicting global distributions of eukaryotic plankton communities from satellite data.
Kaneko H, Endo H, Henry N, Berney C, Mahé F, Poulain J, Labadie K, Beluche O, El Hourany R; Tara Oceans Coordinators; Chaffron S, Wincker P, Nakamura R, Karp-Boss L, Boss E, Bowler C, de Vargas C, Tomii K, Ogata H. Kaneko H, et al. ISME Commun. 2023 Sep 22;3(1):101. doi: 10.1038/s43705-023-00308-7. ISME Commun. 2023. PMID: 37740029 Free PMC article.
Ocean-wide comparisons of mesopelagic planktonic community structures.
Rigonato J, Budinich M, Murillo AA, Brandão MC, Pierella Karlusich JJ, Soviadan YD, Gregory AC, Endo H, Kokoszka F, Vik D, Henry N, Frémont P, Labadie K, Zayed AA, Dimier C, Picheral M, Searson S, Poulain J, Kandels S, Pesant S, Karsenti E; Tara Oceans coordinators; Bork P, Bowler C, de Vargas C, Eveillard D, Gehlen M, Iudicone D, Lombard F, Ogata H, Stemmann L, Sullivan MB, Sunagawa S, Wincker P, Chaffron S, Jaillon O. Rigonato J, et al. ISME Commun. 2023 Aug 18;3(1):83. doi: 10.1038/s43705-023-00279-9. ISME Commun. 2023. PMID: 37596349 Free PMC article.
318 results