lesion_data {GRIN2} | R Documentation |
Example T-ALL Lesion Dataset
Description
Genomic lesion dataset including copy number variations, single nucleotide variants, and structural rearrangements affecting 265 newly diagnosed T-cell Acute Lymphoblastic Leukemia (T-ALL) patients, as reported by Liu, Yu, et al. (2017). The original lesion coordinates were based on the GRCh37 (hg19) human genome assembly. We converted these coordinates to GRCh38 (hg38) using the UCSC LiftOver tool (https://genome.ucsc.edu/cgi-bin/hgLiftOver) prior to running GRIN2 analyses.
Usage
lesion_data
Format
lesion_data
A data frame with 6,861 rows and 5 columns:
- ID
Patient identifier for the individual affected by the lesion
- chrom
Chromosome on which the lesion is located
- loc.start
Lesion start position (in base pairs, hg38)
- loc.end
Lesion end position (in base pairs, hg38)
- lsn.type
Type of lesion (e.g., gain, loss, mutation, fusion, etc.)
Source
Adapted from the supplementary tables of Liu, Yu, et al. (2017), Nature Genetics (https://www.nature.com/articles/ng.3909#Sec27)