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| Status |
Public on Aug 24, 2022 |
| Title |
Spatial transcriptomics of in vivo invasive trancheobronchitis biopsies obtained from patients with influenza-associated pulmonary aspergillosis or COVID-19-associated pulmonary aspergillosis |
| Organisms |
Homo sapiens; Severe acute respiratory syndrome coronavirus 2 |
| Experiment type |
Other
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| Summary |
To assess whether transcriptional differences exist in the epithelial tissue and the inflammatory infiltrate of invasive Aspergillus tracheobronchitis in patients with severe influenza or severe COVID-19, we performed GeoMx spatial transcriptomics on four biopsy samples in total: two of patients with influenza-associated pulmonary aspergillosis (IAPA) and two of patients with COVID-19-associated pulmonary aspergillosis (CAPA). Several regions of interest (ROIs) were delineated in each biopsy sample, and transcriptomic data was derived of each of these ROIs using GeoMx with a whole transcriptome atlas with SARS-CoV-2 spike-in.
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| Overall design |
Four in vivo tracheobronchial biopsies of invasive Aspergillus tracheobronchitis were obtained from patients with IAPA (n=2) and CAPA (n=2). ROIs were selected in epithelial tissue and in the (subepithelial) inflammatory infiltrate.
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| Contributor(s) |
Feys S, Carvalho A, van Weyenbergh J, Wauters J |
| Citation(s) |
36029799 |
| |
| Submission date |
Mar 07, 2022 |
| Last update date |
Feb 26, 2023 |
| Contact name |
Wei Yang |
| E-mail(s) |
wyang@nanostring.com
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| Organization name |
Nanostring
|
| Street address |
530 Fairview Ave N
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
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| Platforms (2) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL29320 |
Illumina NovaSeq 6000 (Homo sapiens; Severe acute respiratory syndrome coronavirus 2) |
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| Samples (17)
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| Relations |
| BioProject |
PRJNA813601 |
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