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Glioblastoma vaccine shows viability; k4neo tool aids low-mutation targets

A phase Ib trial in glioblastoma demonstrates the clinical viability of personalized neoantigen-pulsed dendritic cell vaccines, while a new bioinformatics tool, k4neo, addresses the computational bottleneck of verifying tumor specificity for low-mutational-burden targets.Bioengineer.orgbioRxiv

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Personalized Neoantigen Dendritic Cell Vaccine in Glioblastoma - Bioengineer.org

Researchers Zhang, Chi, Liu, and colleagues published phase Ib results in Nature Communications for a personalized neoantigen-pulsed autologous dendritic cell therapy in newly diagnosed glioblastoma. The approach isolates patient dendritic cells, pulses them with tumor-specific neoantigens, and reintroduces them to activate cytotoxic T-cells against the heterogeneous tumor. This represents a direct clinical validation of personalized DC vaccine strategies for an aggressive brain cancer with limited treatment options.

news · today · Bioengineer.org

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AI / MethodsyesterdayNew

Computing tumor specificity of cancer antigen targets by k-mer indexing of healthy tissue transcriptomes

The preprint introduces k4neo, a k-mer indexing algorithm that computes tumor specificity of transcript variants by screening against 18,960 healthy tissue samples without mapping or re-analysis. This method addresses the computational cost of verifying tumor-restricted expression for mRNA targets like gene fusions and splice junctions in low-mutational-burden tumors. Benchmarked across nine cohorts, it accurately classifies somatic variants and nominated a median of 4-80 tumor-specific targets per cohort.

biorxiv · yesterday · Hausmann, J.; Lang, F.; Muslu, O.; Kress, L.; Landry, J.; Suchan, M.; Nubbemeyer, A.; Kune