Recent publications
Article
COVID-19 Genomics UK (COG-UK) Consortium & Beggs, A 2022, 'Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study', The Lancet Infectious Diseases, vol. 22, no. 1, pp. 35-42. https://doi.org/10.1016/S1473-3099(21)00475-8
Horniblow, RD, Pathak, P, Balacco, DL, Acharjee, A, Lles, E, Gkoutos, G, Beggs, AD & Tselepis, C 2022, 'Iron-mediated epigenetic activation of NRF2 targets', Journal of Nutritional Biochemistry, vol. 101, 108929. https://doi.org/10.1016/j.jnutbio.2021.108929
Bosch, S, Acharjee, A, Quraishi, MN, Rojas, P, Bakkali, A, Jansen, EE, Brizzio Brentar, M, Kuijvenhoven, J, Stokkers, P, Struys, E, Beggs, AD, Gkoutos, GV, de Meij, TG & de Boer, NK 2022, 'The potential of fecal microbiota and amino acids to detect and monitor patients with adenoma', Gut Microbes, vol. 14, no. 1, 2038863. https://doi.org/10.1080/19490976.2022.2038863
Wood, H, Acharjee, A, Pearce, H, Quraishi, MN, Powell, R, Rossiter, A, Beggs, A, Ewer, A, Moss, P & Toldi, G 2021, 'Breastfeeding promotes early neonatal regulatory T-cell expansion and immune tolerance of non-inherited maternal antigens', Allergy. https://doi.org/10.1111/all.14736
The ISARIC4C Investigators, COVID-19 Genomics UK (COG-UK) Consortium & Beggs, A 2021, 'Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity', Cell, vol. 184, no. 5, pp. 1171-1187.e20. https://doi.org/10.1016/j.cell.2021.01.037
Stodolna, A, He, M, Vasipalli, M, Kingsbury, Z, Becq, J, Stockton, JD, Dilworth, MP, James, J, Sillo, T, Blakeway, D, Ward, ST, Ismail, T, Ross, MT & Beggs, AD 2021, 'Clinical-grade whole-genome sequencing and 3' transcriptome analysis of colorectal cancer patients', Genome medicine, vol. 13, no. 1, 33. https://doi.org/10.1186/s13073-021-00852-8
COVID-19 Genomics UK (COG-UK) Consortium & Beggs, A 2021, 'Combined epidemiological and genomic analysis of nosocomial SARS-CoV-2 infection early in the pandemic and the role of unidentified cases in transmission', Clinical Microbiology and Infection. https://doi.org/10.1016/j.cmi.2021.07.040
S:CORT Consortium 2021, 'Complete response to neoadjuvant chemoradiotherapy in rectal cancer is associated with RAS/AKT mutations and high tumour mutational burden', Radiation oncology (London, England), vol. 16, no. 1, 129. https://doi.org/10.1186/s13014-021-01853-y
The COVID-19 Genomics UK (COG-UK) Consortium & Beggs, A 2021, 'Detecting SARS-CoV-2 variants with SNP genotyping', PLOS One, vol. 16, no. 2, e0243185. https://doi.org/10.1371/journal.pone.0243185
Ptasinska, A, Whalley, C, Bosworth, A, Poxon, C, Bryer, C, Machin, N, Grippon, S, Wise, EL, Armson, B, Howson, ELA, Goring, A, Snell, G, Forster, J, Mattocks, C, Frampton, S, Anderson, R, Cleary, D, Parker, J, Boukas, K, Graham, N, Cellura, D, Garratt, E, Skilton, R, Sheldon, H, Collins, A, Ahmad, N, Friar, S, Burns, D, Williams, T, Godfrey, KM, Deans, Z, Douglas, A, Hill, S, Kidd, M, Porter, D, Kidd, SP, Cortes, NJ, Fowler, V, Williams, T, Richter, A & Beggs, AD 2021, 'Diagnostic accuracy of loop-mediated isothermal amplification coupled to nanopore sequencing (LamPORE) for the detection of SARS-CoV-2 infection at scale in symptomatic and asymptomatic populations', Clinical Microbiology and Infection. https://doi.org/10.1016/j.cmi.2021.04.008
Phipps, O, Quraishi, MN, Dickson, EA, Steed, H, Kumar, A, Acheson, AG, Beggs, AD, Brookes, MJ & Al-Hassi, HO 2021, 'Differences in the on- and off-tumor microbiota between right- and left-sided colorectal cancer', Microorganisms, vol. 9, no. 5, 1108. https://doi.org/10.3390/microorganisms9051108
Awasthi, A, Barbour, J, Beggs, A, Bhandari, P, Blakeway, D, Brookes, M, Brown, J, Brown, M, Caldwell, G, Clokie, S, Colleypriest, B, Conlin, A, Silva, SD, Caestecker, JD, Deeks, J, Dhar, A, Dilworth, M, Fogden, E, Foley, S, Ghosh, D, Grellier, L, Hart, A, Hoque, SS, Iacucci, M, Iqbal, T, James, J, Jarvis, M, Jayaprakash, A, Keshav, S, Magill, L, Matthews, G, Mawdsley, J, McLaughlin, S, Mehta, S, Monahan, K, Morton, D, Murugesan, S, Parkes, M, Pestinger, V, Probert, C, Ramadas, A, Rettino, A, Sebastian, S, Sharma, N, Griffiths, M, Stockton, J, Subramanian, V, Suggett, N, Taniere, P, Teare, J, Verma, AM & Wallis, Y 2021, 'Enhanced neoplasia detection in chronic ulcerative colitis: the ENDCaP-C diagnostic accuracy study', Efficacy and Mechanism Evaluation, vol. 8, no. 1, pp. 1-87. https://doi.org/10.3310/eme08010
Du Plessis, L, Mccrone, JT, Zarebski, AE, Hill, V, Ruis, C, Gutierrez, B, Raghwani, J, Ashworth, J, Colquhoun, R, Connor, TR, Faria, NR, Jackson, B, Loman, NJ, O’toole, Á, Nicholls, SM, Parag, KV, Scher, E, Vasylyeva, TI, Volz, EM, Watts, A, Bogoch, II, Khan, K, COVID-19 Genomics UK (COG-UK) Consortium, Aanensen, DM, Kraemer, MUG, Rambaut, A, Pybus, OG & Beggs, A 2021, 'Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK', Science, vol. 371, no. 6530, pp. 708-712. https://doi.org/10.1126/science.abf2946
CMMID COVID-19 Working Group, COVID-19 Genomics UK (COG-UK) Consortium & Beggs, A 2021, 'Estimated transmissibility and impact of SARS-CoV-2 lineage B. 1.1.7 in England', Science, vol. 372, no. 6538, eabg3055. https://doi.org/10.1126/science.abg3055
Letter
Winzor, G, Bosworth, A, Whalley, C, Beggs, AD & Atabani, SF 2021, 'Detection of SARS-CoV-2 on laboratory paper request forms: a potential source of infection for laboratory personnel', The Journal of hospital infection, vol. 108, pp. 207-208. https://doi.org/10.1016/j.jhin.2020.11.003
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