Abstract
Here, we present a protocol for deriving a continuum score for group 3 and 4 medulloblastoma tumor samples analyzed via RNA-sequencing or DNA methylation microarray. We describe steps for utilizing NMF-defined group 3/group 4 metagenes to calculate a continuum score between 0 and 1 that can be projected onto new sample data analyzed via RNA-sequencing. We then detail procedures for reverse engineering a continuum score for samples analyzed via DNA methylation microarray using a random forest classifier.
Original language | English |
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Article number | 102509 |
Journal | STAR Protocols |
Volume | 4 |
Issue number | 3 |
Early online date | 18 Aug 2023 |
DOIs | |
Publication status | Published - 15 Sept 2023 |
Keywords
- Bioinformatics
- Cancer
- Molecular Biology
- RNAseq
- Sequence analysis
- Sequencing