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Generation of a Novel SARS-CoV-2 Sub-genomic RNA Due to the R203K/G204R Variant in Nucleocapsid: Homologous Recombination has Potential to Change SARS-CoV-2 at Both Protein and RNA Level.
Leary S, Gaudieri S, Parker MD, Chopra A, James I, Pakala S, Alves E, John M, Lindsey BB, Keeley AJ, Rowland-Jones SL, Swanson MS, Ostrov DA, Bubenik JL, Das SR, Sidney J, Sette A; COVID-19 Genomics UK (COG-UK) consortium, de Silva TI, Phillips E, Mallal S. Leary S, et al. Among authors: sidney j. Pathog Immun. 2021 Aug 20;6(2):27-49. doi: 10.20411/pai.v6i2.460. eCollection 2021. Pathog Immun. 2021. PMID: 34541432 Free PMC article.
Broadly directed SARS-CoV-2-specific CD4+ T cell response includes frequently detected peptide specificities within the membrane and nucleoprotein in patients with acute and resolved COVID-19.
Heide J, Schulte S, Kohsar M, Brehm TT, Herrmann M, Karsten H, Marget M, Peine S, Johansson AM, Sette A, Lütgehetmann M, Kwok WW, Sidney J, Schulze Zur Wiesch J. Heide J, et al. Among authors: sidney j. PLoS Pathog. 2021 Sep 16;17(9):e1009842. doi: 10.1371/journal.ppat.1009842. eCollection 2021 Sep. PLoS Pathog. 2021. PMID: 34529740 Free PMC article.
Functional HPV-specific PD-1+ stem-like CD8 T cells in head and neck cancer.
Eberhardt CS, Kissick HT, Patel MR, Cardenas MA, Prokhnevska N, Obeng RC, Nasti TH, Griffith CC, Im SJ, Wang X, Shin DM, Carrington M, Chen ZG, Sidney J, Sette A, Saba NF, Wieland A, Ahmed R. Eberhardt CS, et al. Among authors: sidney j. Nature. 2021 Sep;597(7875):279-284. doi: 10.1038/s41586-021-03862-z. Epub 2021 Sep 1. Nature. 2021. PMID: 34471285
Profiling Human CMV-specific T cell responses reveals novel immunogenic ORFs.
Dhanwani R, Dhanda SK, Pham J, Williams GP, Sidney J, Grifoni A, Picarda G, Lindestam Arlehamn CS, Sette A, Benedict CA. Dhanwani R, et al. Among authors: sidney j. J Virol. 2021 Aug 11:JVI0094021. doi: 10.1128/JVI.00940-21. Online ahead of print. J Virol. 2021. PMID: 34379494
SARS-CoV-2 human T cell epitopes: Adaptive immune response against COVID-19.
Grifoni A, Sidney J, Vita R, Peters B, Crotty S, Weiskopf D, Sette A. Grifoni A, et al. Among authors: sidney j. Cell Host Microbe. 2021 Jul 14;29(7):1076-1092. doi: 10.1016/j.chom.2021.05.010. Epub 2021 May 21. Cell Host Microbe. 2021. PMID: 34237248 Free PMC article. Review.
Impact of SARS-CoV-2 variants on the total CD4+ and CD8+ T cell reactivity in infected or vaccinated individuals.
Tarke A, Sidney J, Methot N, Yu ED, Zhang Y, Dan JM, Goodwin B, Rubiro P, Sutherland A, Wang E, Frazier A, Ramirez SI, Rawlings SA, Smith DM, da Silva Antunes R, Peters B, Scheuermann RH, Weiskopf D, Crotty S, Grifoni A, Sette A. Tarke A, et al. Among authors: sidney j. Cell Rep Med. 2021 Jul 20;2(7):100355. doi: 10.1016/j.xcrm.2021.100355. Epub 2021 Jul 2. Cell Rep Med. 2021. PMID: 34230917 Free PMC article.
Profiling SARS-CoV-2 HLA-I peptidome reveals T cell epitopes from out-of-frame ORFs.
Weingarten-Gabbay S, Klaeger S, Sarkizova S, Pearlman LR, Chen DY, Gallagher KME, Bauer MR, Taylor HB, Dunn WA, Tarr C, Sidney J, Rachimi S, Conway HL, Katsis K, Wang Y, Leistritz-Edwards D, Durkin MR, Tomkins-Tinch CH, Finkel Y, Nachshon A, Gentili M, Rivera KD, Carulli IP, Chea VA, Chandrashekar A, Bozkus CC, Carrington M; MGH COVID-19 Collection & Processing Team, Bhardwaj N, Barouch DH, Sette A, Maus MV, Rice CM, Clauser KR, Keskin DB, Pregibon DC, Hacohen N, Carr SA, Abelin JG, Saeed M, Sabeti PC. Weingarten-Gabbay S, et al. Among authors: sidney j. Cell. 2021 Jul 22;184(15):3962-3980.e17. doi: 10.1016/j.cell.2021.05.046. Epub 2021 Jun 3. Cell. 2021. PMID: 34171305 Free PMC article.
Generation of a novel SARS-CoV-2 sub-genomic RNA due to the R203K/G204R variant in nucleocapsid: homologous recombination has potential to change SARS-CoV-2 at both protein and RNA level.
Leary S, Gaudieri S, Parker MD, Chopra A, James I, Pakala S, Alves E, John M, Lindsey BB, Keeley AJ, Rowland-Jones SL, Swanson MS, Ostrov DA, Bubenik JL, Das S, Sidney J, Sette A; COVID-19 Genomics UK (COG-UK) consortium, de Silva TI, Phillips E, Mallal S. Leary S, et al. Among authors: sidney j. bioRxiv. 2021 Aug 6:2020.04.10.029454. doi: 10.1101/2020.04.10.029454. Preprint. bioRxiv. 2021. PMID: 33880475 Free PMC article.
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