GBMdeconvoluteR accurately infers proportions of neoplastic and immune cell populations from bulk glioblastoma transcriptomics data

• DOI: 10.1093/neuonc/noad021
• Publication Date: 2023-01-21T05:12:43Z
• Authors: Shoaib Ajaib; Disha Lodha; Steven Pollock; Gemma Hemmings; Martina A Finetti; Arief Gusnanto; Aruna Chakrabarty; Azzam Ismail; Erica Wilson; Frederick S Varn; Bethany Hunter; Andrew Filby; Asa A Brockman; David McDonald; Roel G W Verhaak; Rebecca A Ihrie; Lucy F Stead
• Keywords: 0301 basic medicine; JGM; Brain Neoplasms; Gene Expression Profiling; 610; 3. Good health; 03 medical and health sciences; Tumor Microenvironment; Humans; Basic and Translational; Microglia; Glioblastoma; Transcriptome

Characterizing and quantifying cell types within glioblastoma (GBM) tumors at scale will facilitate a better understanding of the association between cellular landscape tumor phenotypes or clinical correlates. We aimed to develop tool that deconvolutes immune neoplastic cells GBM microenvironment from bulk RNA sequencing data.