papaemmelab/MDS_SF3B1_iPSC

Repository of Asimomitis et al. Blood Advances publication: Patient-specific MDS-RS iPSCs define the mis-spliced transcript repertoire and chromatin landscape of SF3B1-mutant HSPCs (https://doi.org/10.1182/bloodadvances.2021006325)

Repository of publication: Patient-specific MDS-RS iPSCs define the mis-spliced transcript repertoire and chromatin landscape of SF3B1-mutant HSPCs

📁 Content

The repository contains the following directories:

└─ src/: folder containing the jupyter notebook with R code to reproduce figures
└─ results/: folder containing the output of the notebook
└─ data/:
|   └─ iPSC/: folder containing the iPSC data
|   └─ patient_samples/: folder containing data from public patient samples used in the study

▶️ Getting Started

Clone the repository

To clone this repository on your local computer please run:

$ git clone https://github.com/papaemmelab/MDS_SF3B1_iPSC

Run notebook

To run the notebook please first install jupyter with an R kernel here. For the R libraries necessary to be installed (see notebook) please use:

-install.packages("package_name") for the CRAN libraries

-BiocManager::install("package_name") for the Bioconductor libraries

📧 Contact

For any questions, please contact Georgios.