GBMDeconvoluteR is a Shiny-based web application for estimating the abundance of immune, stromal and neoplastic cell populations using bulk expression profiles, obtained from grade IV glioblastoma (GBM) samples.
To run the hosted version of this application please visit:
https://gbmdeconvoluter.leeds.ac.uk
If you wish to run this application on your local machine, this can be easily be done by running first forking this repository and the using the runGithub() function from the shiny R package.
Currently, our paper is in preprint and has not been certified by peer review, though please cite:
@article {Ajaib2022.11.19.517187,
author = {Ajaib, Shoaib and Lodha, Disha and Pollock, Steven and Hemmings, Gemma and Finetti, Martina A. and Gusnanto, Arief and Chakrabarty, Aruna and Ismail, Azzam and Wilson, Erica and Varn, Frederick S and Hunter, Bethany and Filby, Andrew and Brockman, Asa A. and McDonald, David and Verhaak, Roel GW and Ihrie, Rebecca A. and Stead, Lucy F.},
title = {GBMdeconvoluteR accurately infers proportions of neoplastic and immune cell populations from bulk glioblastoma transcriptomics data},
elocation-id = {2022.11.19.517187},
year = {2022},
doi = {10.1101/2022.11.19.517187},
publisher = {Cold Spring Harbor Laboratory},
URL = {https://www.biorxiv.org/content/early/2022/11/21/2022.11.19.517187},
eprint = {https://www.biorxiv.org/content/early/2022/11/21/2022.11.19.517187.full.pdf},
journal = {bioRxiv}
}