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Table 2 Common testing techniques utilized to molecularly characterize pLGG including their associated cost, input requirements, limitations and time requirements

From: Pediatric low-grade glioma in the era of molecular diagnostics

Technique Time (hours) Cost (per sample) Input Utility Clinical Limitations
Immunohistochemistry + + 1 FFPE slide 1 target/slide • Subject to antibody availability
Fluorescent in situ hybridization ++ ++ 1 FFPR slide 1 target/slide • Subject to probe design/ availability
Droplet digital PCR + + 10-50ng DNA/target 1 target per reaction • Requires access to expensive equipment
NanoString nCounter ++ ++ 200-500ng RNA Up to 800 targets per reaction • Requires RNA <10 years old
• Requires access to expensive equipment
SNP Array +++ +++ 100-200ng of DNA Dependent on probe frequency • Limited to copy number alterations
• Subject to batch effect
Next Generation Sequencing Panels +++ +++ 20-100ng DNA/RNA Design dependent • Requires RNA <10 years old
• Requires access to expensive equipment
• Requires significant downstream analysis
Methylation Array +++ +++ 20-50ng of bisulphite converted DNA Methylation-based diagnosis [20] • Requires access to expensive equipment
• Subject to batch effect