Systematic transcriptomic analysis of childhood medulloblastoma identifies N6-methyladenosine-dependent lncRNA signatures associated with molecular subtype, immune cell infiltration, and prognosis

• DOI: 10.1186/s40478-024-01848-2
• Publication Date: 2024-08-28T06:02:52Z
• Authors: Kandarp Joshi; Menglang Yuan; Keisuke Katsushima; Olivier Saulnier; Animesh Ray; Ernest Amankwah; Stacie Stapleton; George Jallo; Michael D. Taylor; Charles G. Eberhart; Ranjan J. Perera
• Keywords: Infiltration (HVAC)

Medulloblastoma, the most common malignant pediatric brain tumor, is classified into four main molecular subgroups, but group 3 and 4 tumors are difficult to subclassify have a poor prognosis. Rapid point-of-care diagnostic prognostic assays needed improve medulloblastoma risk stratification management. N6-methyladenosine (m6A) RNA modification long non-coding RNAs (lncRNAs) play central role in tumor progression, their impact on gene expression associated clinical outcomes unknown. Here we analyzed 469 transcriptomes identify lncRNAs co-expressed with m6A regulators. Using LASSO-Cox analysis, identified five-gene m6A-associated lncRNA signature (M6LSig) significantly overall survival, which was combined nomogram. of 67 lncRNAs, subgroup classification model generated using XGBoost machine learning algorithm, had accuracy > 90%, including for samples. All M6LSig genes were correlated at least one immune cell type abundance microenvironment, score positively CD4