Unknown,Transcriptomics,Genomics,Proteomics

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Deciphering the molecular immune response to COVID-19 using single cell multi-omics

ABSTRACT: Multi-omics single-cell profiling of surface proteins, gene expression and lymphocyte immune receptors from hospitalised COVID-19 patient peripheral blood immune cells and healthy controls donors. Identification of the coordinated immune cell compositional and state changes in response to SARS-CoV-2 infection or LPS challenge, compared to healthy control immune cells.

INSTRUMENT(S): Illumina NovaSeq 6000, 10X Genomics Chromium

ORGANISM(S): Homo sapiens

SUBMITTER: Mike Morgan 

PROVIDER: E-MTAB-10026 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Single-cell multi-omics analysis of the immune response in COVID-19.

Stephenson Emily E   Reynolds Gary G   Botting Rachel A RA   Calero-Nieto Fernando J FJ   Morgan Michael D MD   Tuong Zewen Kelvin ZK   Bach Karsten K   Sungnak Waradon W   Worlock Kaylee B KB   Yoshida Masahiro M   Kumasaka Natsuhiko N   Kania Katarzyna K   Engelbert Justin J   Olabi Bayanne B   Spegarova Jarmila Stremenova JS   Wilson Nicola K NK   Mende Nicole N   Jardine Laura L   Gardner Louis C S LCS   Goh Issac I   Horsfall Dave D   McGrath Jim J   Webb Simone S   Mather Michael W MW   Lindeboom Rik G H RGH   Dann Emma E   Huang Ni N   Polanski Krzysztof K   Prigmore Elena E   Gothe Florian F   Scott Jonathan J   Payne Rebecca P RP   Baker Kenneth F KF   Hanrath Aidan T AT   Schim van der Loeff Ina C D ICD   Barr Andrew S AS   Sanchez-Gonzalez Amada A   Bergamaschi Laura L   Mescia Federica F   Barnes Josephine L JL   Kilich Eliz E   de Wilton Angus A   Saigal Anita A   Saleh Aarash A   Janes Sam M SM   Smith Claire M CM   Gopee Nusayhah N   Wilson Caroline C   Coupland Paul P   Coxhead Jonathan M JM   Kiselev Vladimir Yu VY   van Dongen Stijn S   Bacardit Jaume J   King Hamish W HW   Rostron Anthony J AJ   Simpson A John AJ   Hambleton Sophie S   Laurenti Elisa E   Lyons Paul A PA   Meyer Kerstin B KB   Nikolić Marko Z MZ   Duncan Christopher J A CJA   Smith Kenneth G C KGC   Teichmann Sarah A SA   Clatworthy Menna R MR   Marioni John C JC   Göttgens Berthold B   Haniffa Muzlifah M  

Nature medicine 20210420 5

Analysis of human blood immune cells provides insights into the coordinated response to viral infections such as severe acute respiratory syndrome coronavirus 2, which causes coronavirus disease 2019 (COVID-19). We performed single-cell transcriptome, surface proteome and T and B lymphocyte antigen receptor analyses of over 780,000 peripheral blood mononuclear cells from a cross-sectional cohort of 130 patients with varying severities of COVID-19. We identified expansion of nonclassical monocyte  ...[more]

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