Single-cell RNA sequencing of bronchoalveolar lavages from COVID-19 patients

Discriminating mild-moderate from critical COVID-19 disease by innate and adaptive immune single-cell profiling of bronchoalveolar lavages.

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 13 Publications

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001006893	Single-cell RNA sequencing of bronchoalveolar lavages from COVID-19 patients.	Illumina NovaSeq 6000	35

Publications	Citations
Discriminating mild from critical COVID-19 by innate and adaptive immune single-cell profiling of bronchoalveolar lavages. Wauters E, Van Mol P, Garg AD, Jansen S, Van Herck Y, Vanderbeke L, Bassez A, Boeckx B, Malengier-Devlies B, Timmerman A, Van Brussel T, Van Buyten T, Schepers R, Heylen E, Dauwe D, Dooms C, Gunst J, Hermans G, Meersseman P, Testelmans D, Yserbyt J, Tejpar S, De Wever W, Matthys P, CONTAGIOUS collaborators, Neyts J, Wauters J, Qian J, Lambrechts D. Cell Res 31: 2021 272-290	264
Dissecting the common and compartment-specific features of COVID-19 severity in the lung and periphery with single-cell resolution. Overholt KJ, Krog JR, Zanoni I, Bryson BD. iScience 24: 2021 102738	9
Monocyte-driven atypical cytokine storm and aberrant neutrophil activation as key mediators of COVID-19 disease severity. Vanderbeke L, Van Mol P, Van Herck Y, De Smet F, Humblet-Baron S, Martinod K, Antoranz A, Arijs I, Boeckx B, Bosisio FM, Casaer M, Dauwe D, De Wever W, Dooms C, Dreesen E, Emmaneel A, Filtjens J, Gouwy M, Gunst J, Hermans G, Jansen S, Lagrou K, Liston A, Lorent N, Meersseman P, Mercier T, Neyts J, Odent J, Panovska D, Penttila PA, Pollet E, Proost P, Qian J, Quintelier K, Raes J, Rex S, Saeys Y, Sprooten J, Tejpar S, Testelmans D, Thevissen K, Van Buyten T, Vandenhaute J, Van Gassen S, Velásquez Pereira LC, Vos R, Weynand B, Wilmer A, Yserbyt J, Garg AD, Matthys P, Wouters C, Lambrechts D, Wauters E, Wauters J. Nat Commun 12: 2021 4117	188
Self-sustaining IL-8 loops drive a prothrombotic neutrophil phenotype in severe COVID-19. Kaiser R, Leunig A, Pekayvaz K, Popp O, Joppich M, Polewka V, Escaig R, Anjum A, Hoffknecht ML, Gold C, Brambs S, Engel A, Stockhausen S, Knottenberg V, Titova A, Haji M, Scherer C, Muenchhoff M, Hellmuth JC, Saar K, Schubert B, Hilgendorff A, Schulz C, Kääb S, Zimmer R, Hübner N, Massberg S, Mertins P, Nicolai L, Stark K. JCI Insight 6: 2021 e150862	83
Clinical practices underlie COVID-19 patient respiratory microbiome composition and its interactions with the host. Lloréns-Rico V, Gregory AC, Van Weyenbergh J, Jansen S, Van Buyten T, Qian J, Braz M, Menezes SM, Van Mol P, Vanderbeke L, Dooms C, Gunst J, Hermans G, Meersseman P, CONTAGIOUS collaborators, Wauters E, Neyts J, Lambrechts D, Wauters J, Raes J. Nat Commun 12: 2021 6243	69
Single-Cell Landscape of Lungs Reveals Key Role of Neutrophil-Mediated Immunopathology during Lethal SARS-CoV-2 Infection. Zheng XS, Wang Q, Min J, Shen XR, Li Q, Zhao QC, Wang X, Jiang RD, Geng R, Chen Y, Zhu Y, Li B, Zhang W, Li A, Xie TT, Liu MQ, Cheng L, Shi ZL, Zhou P. J Virol 96: 2022 e0003822	15
Metabolic modeling of single bronchoalveolar macrophages reveals regulators of hyperinflammation in COVID-19. Zhao Q, Yu Z, Zhang S, Shen XR, Yang H, Xu Y, Liu Y, Yang L, Zhang Q, Chen J, Lu M, Luo F, Hu M, Gong Y, Xie C, Zhou P, Wang L, Su L, Zhang Z, Cheng L. iScience 25: 2022 105319	13
Severe COVID-19 patients display hyper-activated NK cells and NK cell-platelet aggregates. Malengier-Devlies B, Filtjens J, Ahmadzadeh K, Boeckx B, Vandenhaute J, De Visscher A, Bernaerts E, Mitera T, Jacobs C, Vanderbeke L, Van Mol P, Van Herck Y, Hermans G, Meersseman P, Wilmer A, Gouwy M, Garg AD, Humblet-Baron S, De Smet F, Martinod K, Wauters E, Proost P, Wouters C, Leclercq G, Lambrechts D, Wauters J, Matthys P. Front Immunol 13: 2022 861251	32
An epithelial-immune circuit amplifies inflammasome and IL-6 responses to SARS-CoV-2. Barnett KC, Xie Y, Asakura T, Song D, Liang K, Taft-Benz SA, Guo H, Yang S, Okuda K, Gilmore RC, Loome JF, Oguin Iii TH, Sempowski GD, Randell SH, Heise MT, Lei YL, Boucher RC, Ting JP. Cell Host Microbe 31: 2023 243-259.e6	52
A cross entropy test allows quantitative statistical comparison of t-SNE and UMAP representations. Roca CP, Burton OT, Neumann J, Tareen S, Whyte CE, Gergelits V, Veiga RV, Humblet-Baron S, Liston A. Cell Rep Methods 3: 2023 100390	22
C5aR1 signaling triggers lung immunopathology in COVID-19 through neutrophil extracellular traps. Silva BM, Gomes GF, Veras FP, Cambier S, Silva GV, Quadros AU, Caetité DB, Nascimento DC, Silva CM, Silva JC, Damasceno S, Schneider AH, Beretta F, Batah SS, Castro IM, Paiva IM, Rodrigues T, Salina A, Martins R, Cebinelli GC, Bibo NL, Jorge DM, Nakaya HI, Zamboni DS, Leiria LO, Fabro AT, Alves-Filho JC, Arruda E, Louzada-Junior P, Oliveira RD, Cunha LD, Van Mol P, Vanderbeke L, Feys S, Wauters E, Brandolini L, Aramini A, Cunha FQ, Köhl J, Allegretti M, Lambrechts D, Wauters J, Proost P, Cunha TM. J Clin Invest 133: 2023 e163105	20
Pulmonary Myeloid Cells in Mild Cases of COVID-19 Upregulate the Intracellular Fc Receptor <i>TRIM21</i> and Transcribe Proteasome-Associated Molecules. Henriques-Pons A, Castro MCS, Silva VS, Costa MOC, Silva HSIL, Walter MEMT, Carvalho ACC, Melo ACMA, Ocaña K, Santos MTD, Nicolas MF, Silva FAB. Int J Mol Sci 26: 2025 2769	0
Putrescine functions as a metabolic checkpoint in replication stress-induced senescence. Vasilogiannakopoulou T, Begou O, Karali CS, Efthymiou G, Roubelakis M, Gorgoulis V, Gkouskou KK, Gika H, Eliopoulos AG. Cell Mol Life Sci 82: 2025 410	0