We analyzed 4 samples of healthy(2) and local iron-overload(2) mice back skin scRNA-seq data. Disease was modeled by local iron-dextran deposition in mice dermis, mimicking human lipodermatosclerosis. Our analysis revealed substantial tissue remodeling, favoring angiogenic fibroblasts.
Contributors names and contact info
Arpine Grigoryan (a.grigoryan@epfl.ch) Melina Tamazyan (melina.tamazyan@abi.am)
- PRE-PROCESSING First 4 seurat objects were constructed, filtered and processed 2 control (dx) samples were integrated together, and saved into rds/dx_integrated.rds (here we have all celltypes)
2 case (fedx) samples were integrated together, and saved into rds/fedx_integrated.rds (here we have all celltypes, no annotation)
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LABEL TRANSFER Using Helm et al 2023 as reference, we annotate our cell types in DX only, saved in rds/dx_integrated.rds (here we have all celltypes, annotated)
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FOCUSING ONLY ON FIBROBLASTS We decided to focus only on fibroblasts, so we subset fibros from dx_integrated.rds
- Describe any prerequisites, libraries, OS version, etc., needed before installing program.
- ex. Windows 10
This project is licensed under the [NAME HERE] License - see the LICENSE.md file for details
Inspiration, code snippets, etc.