Single Cell Atlas - PDAC

Integrated Analysis of the Tumor Microenvironment (TME)

Supplementary repository of data, analysis and code.

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1). PDAC Atlas Data

* Seurat Objects [Cell Type 1] (.rds)
  - Stroma (PSC/CAF) (4.1 Gb)
        wget http://pdacR.bmi.stonybrook.edu/scRNA/Stroma_Subset2021.rds
  - Myeloid (2.8 Gb)
        wget http://pdacR.bmi.stonybrook.edu/scRNA/Myeloid_Subset2021.rds
  - Lymphocytes (6 Gb)
        wget http://pdacR.bmi.stonybrook.edu/scRNA/Lymphocytes_Subset2021.rds
  - Epithelium (5.6 Gb)
        wget http://pdacR.bmi.stonybrook.edu/scRNA/Epi_Subset2021.rds
  - Endothelium (1.4 Gb)
        wget http://pdacR.bmi.stonybrook.edu/scRNA/Endo_Subset2021.rds

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2). Supplementary Tables

* Table 1: Subpopulation DEG Output 
* Table 2: Pan-TME DEG Output
* Table 3: Expanded gene signature table
* Table 4: Dataset Metadata

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3). Single Cell Classifier

* Trained RandomForest Classifier (.rds)    
* Vignette 

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