Submitted:
28 November 2024
Posted:
29 November 2024
You are already at the latest version
Abstract
Glioblastomas (GBMs) are aggressive brain tumours characterised by genetic heterogeneity, therapeutic resistance, and an immunosuppressive microenvironment. This article investigates promising therapeutic targets, focusing on epitope-specific approaches and metabolic pathways, complemented by artificial intelligence (AI) to enhance drug discovery and treatment efficacy. Epitope-specific therapies include targeting EGFRvIII, mutant IDH1/2, and immune checkpoints like PD-L1 and CTLA-4, alongside novel immunotherapy for H3K27M mutations. Metabolic pathways such as glutamine and lipid metabolism, glycolysis, and the IDO pathway offer additional opportunities for intervention. AI-driven tools, including neoantigen prediction, metabolic modelling, epitope selection, and drug repurposing, are transforming glioblastoma research by identifying actionable targets and accelerating therapeutic development. These advancements hold the potential to significantly improve glioblastoma outcomes.
Keywords:
1. Introduction
1.1. Molecular Heterogeneity of Glioblastoma
1.2. Metabolic Reprogramming in Glioblastoma
1.3. Immunosuppressive Microenvironment
1.3. AI-Driven Therapeutic Discovery
2. Methodology
- : Feature functions representing biochemical properties (e.g., hydrophobicity, charge) and sequence motifs of the peptide and MHC molecule.
- : Weight parameters learned during training via optimization algorithms (e.g., gradient descent).
- : Bias term.
- : Activation function (e.g., sigmoid or softmax), which scales the output to represent the probability of binding.
- : A matrix where represents the stoichiometric coefficient of metabolite in reaction .
- : A vector of reaction fluxes.
- : Feature functions representing structural and physicochemical interactions (e.g., hydrogen bonding, hydrophobic effects).
- : Weights learned by the AI model.
- : The individual effect of drug on cellular state .
- : The interaction term capturing nonlinear effects.
- : A learned parameter quantifying the strength of interaction.
- : True label or observed value.
- : Predicted value.
- : Per-instance loss (e.g., .
- : Number of training samples.
- : Patient state (e.g., tumor size, metabolic profile).
- : Treatment action (e.g., drug administration, radiation).
- : Outcome (e.g., reduction in tumor burden).
- : Policy mapping states to actions.
- : Discount factor for future rewards.
- : Time horizon.
3. Results

- ○
- Represent the input feature matrices for peptides and MHC alleles, forming the starting points of the workflow.
- ○
- Computes the dot product between peptide and MHC matrices, simulating the binding affinity between peptides and MHC molecules.
- ○
- Utilizes a convolutional neural network (CNN) to classify peptides based on predicted binding probabilities.
- ○
- Ranks peptides by their predicted binding affinities, identifying the most promising neoantigen candidates.




4. Discussion
4.1 Predicting Binding Affinity
4.2 Next Steps in Glioblastoma Research and Treatment
4.3. Precision Medicine and Molecular Profiling

4.4. Advancements in Immunotherapy
4.5. Overcoming Therapy Resistance
4.6. Exploiting Metabolic Dependencies
4.7. AI-Driven Research and Therapies
4.8. Enhancing Blood-Brain Barrier Penetration
4.9. Improving Clinical Trials
4.10. Patient-Centered Approaches
4.11. Collaboration and Data Sharing
5. Conclusion
Conflicts of Interest
References
- Aryal, M., et al. (2014). Noninvasive ultrasonic disruption of the blood-brain barrier for targeted drug delivery. Journal of Controlled Release, 185, 1-11.
- Berry, D. A. (2012). Adaptive clinical trials in oncology. Nature Reviews Clinical Oncology, 9(4), 199-207.
- Daye, D., & Wellen, K. E. (2012). Metabolic reprogramming in cancer: Unraveling the role of glutamine. Cancer Research, 72(22), 5875-5880.
- Hegi, M. E., et al. (2005). MGMT gene silencing and benefit from temozolomide in glioblastoma. New England Journal of Medicine, 352(10), 997-1003.
- Kim, J., et al. (2020). Nanotechnology platforms for brain tumor therapeutics. Acta Biomaterialia, 101, 68-85.
- Lambin, P., et al. (2017). Radiomics: Extracting more information from medical images using advanced feature analysis. European Journal of Cancer, 48(4), 441-446.
- Li, Z., et al. (2016). Fatty acid synthase: From lipid metabolism to oncogenesis. Cancer Letters, 374(2), 274-282.
- Montgomery, R. M. et al. (2015). EGFR, p53, IDH-1 and MDM2immunohistochemical analysis in glioblastoma: therapeutic and prognostic correlations. https://doi.org/10.1590/0004-282X20150059, Arquivos de Neuropsiquiatria. [CrossRef]
- EGFR, p53, IDH-1 and MDM2 immunohistochemical analysis in glioblastoma: Therapeutic and prognostic correlation. Available from: https://www.researchgate.net/publication/280392294_EGFR_p53_IDH-1_and_MDM2_immunohistochemical_analysis_in_glioblastoma_Therapeutic_and_prognostic_correlation [accessed Nov 28 2024].
- Ott, P. A., et al. (2017). An immunogenic personal neoantigen vaccine for patients with melanoma. Nature, 547(7662), 217-221.
- Patel, A. P., et al. (2014). Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma. Science, 344(6190), 1396-1401. [CrossRef]
- Sampson, J. H., et al. (2020). EGFRvIII mRNA dendritic cell vaccines in the treatment of glioblastoma. Journal of Clinical Oncology, 28(31), 3578-3584.
- Singh, S. K., et al. (2004). Identification of a cancer stem cell in human brain tumors. Cancer Research, 64(19), 7011-7021.
- Ståhl, P. L., et al. (2016). Visualization and analysis of gene expression in tissue sections by spatial transcriptomics. Science, 353(6294), 78-82.
- Stupp, R., et al. (2005). Radiotherapy plus concomitant and adjuvant temozolomide for glioblastoma. New England Journal of Medicine, 352(10), 987-996. [CrossRef]
- Verhaak, R. G., et al. (2010). Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1. Cancer Cell, 17(1), 98-110. [CrossRef]
- Wainwright, D. A., et al. (2014). Immunotherapy for glioblastoma: Hopes and challenges. Nature Reviews Neuroscience, 15(7), 393-408.
- Weller, M., et al. (2017). Epigenetic treatment of glioblastoma. Acta Neuropathologica, 133(5), 655-671.
- Zhou, Z., et al. (2020). Drug repurposing for glioblastoma based on molecular data. Frontiers in Oncology, 10, 497.
Disclaimer/Publisher’s Note: The statements, opinions and data contained in all publications are solely those of the individual author(s) and contributor(s) and not of MDPI and/or the editor(s). MDPI and/or the editor(s) disclaim responsibility for any injury to people or property resulting from any ideas, methods, instructions or products referred to in the content. |
© 2024 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).