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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.
Introduction and transmission of SARS-CoV-2 lineage B.1.1.7, Alpha variant, in Denmark.
Michaelsen TY, Bennedbæk M, Christiansen LE, Jørgensen MSF, Møller CH, Sørensen EA, Knutsson S, Brandt J, Jensen TBN, Chiche-Lapierre C, Collados EF, Sørensen T, Petersen C, Le-Quy V, Sereika M, Hansen FT, Rasmussen M, Fonager J, Karst SM, Marvig RL, Stegger M, Sieber RN, Skov R, Legarth R, Krause TG, Fomsgaard A; Danish COVID-19 Genome Consortium (DCGC); Albertsen M. Michaelsen TY, et al. Genome Med. 2022 May 4;14(1):47. doi: 10.1186/s13073-022-01045-7. Genome Med. 2022. PMID: 35505393 Free PMC article.
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; Danish Covid-19 Genome Consortium; COVID-19 Impact Project; Network for Genomic Surveillance in South Africa (NGS-SA); GISAID core curation team; 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, 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. medRxiv [Preprint]. 2021 Dec 9:2021.08.21.21262393. doi: 10.1101/2021.08.21.21262393. medRxiv. 2021. Update in: Nat Commun. 2022 Nov 16;13(1):7003. doi: 10.1038/s41467-022-33713-y PMID: 34462754 Free PMC article. Updated. Preprint.
Risk of hospitalisation associated with infection with SARS-CoV-2 lineage B.1.1.7 in Denmark: an observational cohort study.
Bager P, Wohlfahrt J, Fonager J, Rasmussen M, Albertsen M, Michaelsen TY, Møller CH, Ethelberg S, Legarth R, Button MSF, Gubbels S, Voldstedlund M, Mølbak K, Skov RL, Fomsgaard A, Krause TG; Danish Covid-19 Genome Consortium. Bager P, et al. Lancet Infect Dis. 2021 Nov;21(11):1507-1517. doi: 10.1016/S1473-3099(21)00290-5. Epub 2021 Jun 23. Lancet Infect Dis. 2021. PMID: 34171231 Free PMC article.
Increased transmissibility of SARS-CoV-2 lineage B.1.1.7 by age and viral load.
Lyngse FP, Mølbak K, Skov RL, Christiansen LE, Mortensen LH, Albertsen M, Møller CH, Krause TG, Rasmussen M, Michaelsen TY, Voldstedlund M, Fonager J, Steenhard N; Danish Covid-19 Genome Consortium; Kirkeby CT. Lyngse FP, et al. Nat Commun. 2021 Dec 13;12(1):7251. doi: 10.1038/s41467-021-27202-x. Nat Commun. 2021. PMID: 34903718 Free PMC article.
Rapid and Flexible RT-qPCR Surveillance Platforms To Detect SARS-CoV-2 Mutations.
Spiess K, Gunalan V, Marving E, Nielsen SH, Jørgensen MGP, Fomsgaard AS, Nielsen L, Alfaro-Núñez A, Karst SM; Danish COVID-19 Genome Consortium (DCGC); Mortensen S, Rasmussen M, Lassaunière R, Rosenstierne MW, Polacek C, Fonager J, Cohen AS, Nielsen C, Fomsgaard A. Spiess K, et al. Microbiol Spectr. 2023 Feb 14;11(1):e0359122. doi: 10.1128/spectrum.03591-22. Epub 2023 Jan 9. Microbiol Spectr. 2023. PMID: 36625603 Free PMC article.
High-resolution epidemiological landscape from  ~290,000 SARS-CoV-2 genomes from Denmark.
Khurana MP, Curran-Sebastian J, Scheidwasser N, Morgenstern C, Rasmussen M, Fonager J, Stegger M, Tang ME, Juul JL, Escobar-Herrera LA, Møller FT; Danish COVID-19 Genome Consortium (DCGC); Albertsen M, Kraemer MUG, du Plessis L, Jokelainen P, Lehmann S, Krause TG, Ullum H, Duchêne DA, Mortensen LH, Bhatt S. Khurana MP, et al. Nat Commun. 2024 Aug 20;15(1):7123. doi: 10.1038/s41467-024-51371-0. Nat Commun. 2024. PMID: 39164246 Free PMC article.
A RT-qPCR system using a degenerate probe for specific identification and differentiation of SARS-CoV-2 Omicron (B.1.1.529) variants of concern.
Jessen R, Nielsen L, Larsen NB, Cohen AS, Gunalan V, Marving E, Alfaro-Núñez A, Polacek C; Danish COVID-19 Genome Consortium (DCGC); Fomsgaard A, Spiess K. Jessen R, et al. PLoS One. 2022 Oct 5;17(10):e0274889. doi: 10.1371/journal.pone.0274889. eCollection 2022. PLoS One. 2022. PMID: 36197885 Free PMC article.
Tracking the international spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351/501Y-V2 with grinch.
O'Toole Á, Hill V, Pybus OG, Watts A, Bogoch II, Khan K, Messina JP; COVID-19 Genomics UK (COG-UK) consortium; Network for Genomic Surveillance in South Africa (NGS-SA); Brazil-UK CADDE Genomic Network; Tegally H, Lessells RR, Giandhari J, Pillay S, Tumedi KA, Nyepetsi G, Kebabonye M, Matsheka M, Mine M, Tokajian S, Hassan H, Salloum T, Merhi G, Koweyes J, Geoghegan JL, de Ligt J, Ren X, Storey M, Freed NE, Pattabiraman C, Prasad P, Desai AS, Vasanthapuram R, Schulz TF, Steinbrück L, Stadler T; Swiss Viollier Sequencing Consortium; Parisi A, Bianco A, García de Viedma D, Buenestado-Serrano S, Borges V, Isidro J, Duarte S, Gomes JP, Zuckerman NS, Mandelboim M, Mor O, Seemann T, Arnott A, Draper J, Gall M, Rawlinson W, Deveson I, Schlebusch S, McMahon J, Leong L, Lim CK, Chironna M, Loconsole D, Bal A, Josset L, Holmes E, St George K, Lasek-Nesselquist E, Sikkema RS, Oude Munnink B, Koopmans M, Brytting M, Sudha Rani V, Pavani S, Smura T, Heim A, Kurkela S, Umair M, Salman M, Bartolini B, Rueca M, Drosten C, Wolff T, Silander O, Eggink D, Reusken C, Vennema H, Park A, Carrington C, Sahadeo N, Carr M, Gonzalez G; SEARCH Alliance San Diego; National Virus Reference Laboratory; SeqCOVI… See abstract for full author list ➔ O'Toole Á, et al. Wellcome Open Res. 2021 Sep 17;6:121. doi: 10.12688/wellcomeopenres.16661.2. eCollection 2021. Wellcome Open Res. 2021. PMID: 34095513 Free PMC article.