| example_features_table {driveR} | R Documentation |
Example Features Table for Driver Prioritization
Description
The example dataset containing features for prioritizing cancer driver genes for the lung adenocarcinoma patient studied in Imielinski M, Greulich H, Kaplan B, et al. Oncogenic and sorafenib-sensitive ARAF mutations in lung adenocarcinoma. J Clin Invest. 2014;124(4):1582-6.
Usage
example_features_table
Format
A data frame with 4901 rows and 27 variables:
- gene_symbol
HGNC gene symbol
- metaprediction_score
the maximum metapredictor (coding) impact score for the gene
- noncoding_score
the maximum non-coding PHRED-scaled CADD score for the gene
- scna_score
SCNA proxy score. SCNA density (SCNA/Mb) of the minimal common region (MCR) in which the gene is located
- hotspot_double_hit
boolean indicating whether the gene is a hotspot gene (indication of oncogenes) or subject to double-hit (indication of tumor-suppressor genes)
- phenolyzer_score
'phenolyzer' score for the gene
- hsa03320
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04010
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04020
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04024
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04060
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04066
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04110
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04115
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04150
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04151
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04210
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04310
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04330
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04340
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04350
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04370
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04510
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04512
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04520
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04630
boolean indicating whether or not the gene takes part in this KEGG pathway
- hsa04915
boolean indicating whether or not the gene takes part in this KEGG pathway
See Also
KEGG_cancer_pathways_descriptions for descriptions of
KEGG "Pathways in cancer"-related pathways.