Proteogenomics for pediatric brain cancer

Abstract

Pediatric central nervous system tumors are the most common tumors in children, it constitute 15%-20% of all malignancies in children and are the leading cause of cancer related deaths in children. Proteogenomics is an emerging field of biological research that utilizes a combination of proteomics, genomics, and transcriptomics to aid in the discovery and identification of biomarkers for diagnosis and therapeutic purposes. Integrative proteogenomics analysis of pediatric tumors identified underlying biological processes and potential treatments as well as the functional effects of somatic mutations and copy number variation driving tumorigenesis.

Keywords: Brain cancer; Proteogenomics; Targeted therapy.

FIGURE 1.

Radiological response to bevacizumab therapy; MRI imaging at baseline PLGG (A) and PLGG10 (C) and 15 mo after completion of therapy PLGG8 (B) and after 6 mo of therapy PLGG10 (D) (Zhukova et al., 2019).

FIGURE 2.

Proteomics clustering of pediatric brain tumors showing, summary of the brain tumor cohort, presence of omics datasets for each of the 218 tumor samples, Kaplan-Meier curves for overall survival (OS) of patients stratified by proteomic cluster, proteomic clusters and differentially expressed proteins allocated to 14 gene groups, heatmap of kinase activity scores for CP tumors and diagram showing differences between C4 and C8 CP tumors in terms of phosphorylation abundance and kinase activity for AKT and ERK1/2 signaling members. For full figure description see (Petralia et al., 2020).

FIGURE 2.

Proteomics clustering of pediatric brain tumors showing, summary of the brain tumor cohort, presence of omics datasets for each of the 218 tumor samples, Kaplan-Meier curves for overall survival (OS) of patients stratified by proteomic cluster, proteomic clusters and differentially expressed proteins allocated to 14 gene groups, heatmap of kinase activity scores for CP tumors and diagram showing differences between C4 and C8 CP tumors in terms of phosphorylation abundance and kinase activity for AKT and ERK1/2 signaling members. For full figure description see (Petralia et al., 2020).