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| Status |
Public on Oct 01, 2021 |
| Title |
Spatial transcriptomics of Cutaneous and Systemic Lupus Erythematosus skin |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
We performed spatial transcriptomics on a case series of different clinical subtypes of cutaneous lupus erythematosus including acute cutaneous lupus erythematosus (malar rash, systemic lupus erythematosus). Our goals were to (1) determine which differentially expressed genes (DEGs) could be attributed to specific cell populations in specific locations within the tissue, (2) determine if spatial transcriptomics could better distinguish between CLE clinical subtypes than bulk RNA approaches and (3) examine potential cell-cell communication pathways within the skin lesions.
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| Overall design |
NanoString Digital Spatial Profiling (DSP) with Whole Transcriptome Atlas (WTA) was performed on 4 chronic/discoid lupus erythematosus (CCLE/DLE), 3 subacute cutaneous lupus erythematosus (SCLE) and 3 acute cutaneous lupus erythematosus (ACLE/SLE) patient skin biopsies compared to 3 healthy controls (skin cancer excision healthy/clear margins).
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| Contributor(s) |
Richmond JM, Deng A |
| Citation(s) |
38260617 |
| |
| Submission date |
Aug 26, 2021 |
| Last update date |
Feb 08, 2024 |
| Contact name |
Liang Zhang |
| E-mail(s) |
lzhang@nanostring.com
|
| Organization name |
NanoString
|
| Street address |
530 Fairview Ave N
|
| City |
Seattle |
| State/province |
Washington |
| ZIP/Postal code |
98109 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (41)
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| Relations |
| BioProject |
PRJNA758013 |
| SRA |
SRP334209 |
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