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| Status |
Public on May 05, 2024 |
| Title |
Distinct pulmonary and systemic effects of dexamethasone in severe COVID-19 |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Dexamethasone is the standard of care for critically ill patients with COVID-19, but its immunological effects in this setting and the mechanisms by which it decreases mortality are not understood. We performed bulk and single-cell RNA sequencing of the lower respiratory tract and blood, and plasma cytokine profiling to study the effect of dexamethasone on systemic and pulmonary immune cells. We find signatures of decreased viral injury, antigen presentation, and T cell recruitment in patients treated with dexamethasone. We identify compartment- and cell- specific differences in the effect of dexamethasone in patients with severe COVID that are reproducible in publicly available datasets. Our results highlight the importance of studying compartmentalized inflammation in critically ill patients.
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| Overall design |
PBMCs of severely ill COVID-19 patients that were or were not treated with dexamethasone were analyzed using bulk RNA sequencing
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| Contributor(s) |
Neyton LP, Fragiadakis GK |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Jul 11, 2023 |
| Last update date |
May 06, 2024 |
| Contact name |
Ravi Patel |
| E-mail(s) |
ravi.patel2@ucsf.edu
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| Organization name |
University of California San Francisco
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| Department |
CoLabs
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| Lab |
Fragiadakis lab
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| Street address |
513 Parnassus Ave
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94143 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (21)
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| GSM7595566 |
PBMC, NoDex, patient 43, bulkRNAseq |
| GSM7595567 |
PBMC, NoDex, patient 50, bulkRNAseq |
| GSM7595568 |
PBMC, NoDex, patient 59, bulkRNAseq |
| GSM7595569 |
PBMC, NoDex, patient 72, bulkRNAseq |
| GSM7595570 |
PBMC, NoDex, patient 77, bulkRNAseq |
| GSM7595571 |
PBMC, NoDex, patient 78, bulkRNAseq |
| GSM7595572 |
PBMC, Dex, patient 419, bulkRNAseq |
| GSM7657218 |
PBMC, NoDex, patient 107, bulkRNAseq |
| GSM7657219 |
PBMC, Dex, patient 154, bulkRNAseq |
| GSM7657220 |
PBMC, Dex, patient 156, bulkRNAseq |
| GSM7657221 |
PBMC, Dex, patient 238, bulkRNAseq |
| GSM7657222 |
PBMC, Dex, patient 253, bulkRNAseq |
| GSM7657223 |
PBMC, Dex, patient 254, bulkRNAseq |
| GSM7657224 |
PBMC, Dex, patient 271, bulkRNAseq |
| GSM7657225 |
PBMC, Dex, patient 276, bulkRNAseq |
| GSM7657226 |
PBMC, Dex, patient 340, bulkRNAseq |
| GSM7657227 |
PBMC, Dex, patient 350, bulkRNAseq |
| GSM7657228 |
PBMC, NoDex, patient 94, bulkRNAseq |
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| This SubSeries is part of SuperSeries: |
| GSE237180 |
Distinct pulmonary and systemic effects of dexamethasone in severe COVID-19. |
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| Relations |
| BioProject |
PRJNA993792 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE237109_d0_pbmc_cnt_data_intub.csv.gz |
513.9 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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