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| Status |
Public on Dec 31, 2020 |
| Title |
Human lung organoid for modeling infection and disease conditions (Lung I) |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We sought to define the host immune response, a.k.a, the “cytokine storm” that has been implicated in fatal COVID-19 using an AI-based approach. Over 45,000 publicly available transcriptomic datasets of viral pandemics were analyzed to extract a 166-gene signature using ACE2 as a ‘seed’ gene; ACE2 was rationalized because the receptor it encodes enables the virus that causes Covid-19, SARS-CoV-2, to enter host cells. The signature was surprisingly conserved in all viral pandemics, including COVID-19, inspiring the nomenclature ViP-signature. A subset of 20-genes classified disease severity in respiratory pandemics. The ViP signatures pinpointed airway epithelial and myeloid cells as the major contributors of an IL-15 cytokine storm, and epithelial and NK cell destruction as determinants of severity/fatality. They also helped formulate precise therapeutic goals to reduce disease symptoms and severity. Thus, the ViP signatures provide a quantitative and qualitative framework for titrating the immune response in viral pandemics and may serve as a powerful unbiased tool in our armamentarium to rapidly assess disease severity and vet candidate drugs.
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| Overall design |
Human lung tissues and organoids were processed from two patient samples
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| Contributor(s) |
Sahoo D, Das S, Ghosh P |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Aug 28, 2020 |
| Last update date |
Dec 31, 2020 |
| Contact name |
Debashis Sahoo |
| E-mail(s) |
dsahoo@ucsd.edu
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| Phone |
6508624736
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| Organization name |
UCSD
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| Department |
Pediatrics
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| Lab |
Boolean
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| Street address |
9500 Gillman Drive
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| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093 |
| Country |
USA |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA659992 |
| SRA |
SRP279203 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE157055_Human-tpm-lung-expr.txt.gz |
3.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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