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Table 1 Twenty-six features derived from molecular and systems-level properties of genes and used to predict cancer drivers in sysSVM2. Molecular properties describe gene alterations in individual cancer samples. Systems-level properties are global gene properties (see also Additional file 2: Table S1)

From: Pan-cancer detection of driver genes at the single-patient resolution

Category Property Feature Type
Molecular Gene mutation Mutational load (n) Continuous
Non-truncating damaging mutations (n) Continuous
Truncating mutations (n) Continuous
Hotspot mutations (n) Continuous
Gene copy number Gene copy number (n) Continuous
Gene is amplified Binary
Gene is deleted Binary
Systems-level Gene duplication Gene is duplicated Binary
Gene is an ohnolog Binary
Gene essentiality Cell lines in which gene is essential (%) Continuous
Gene is essential Binary
Gene expression Tissues expressing gene (n) Continuous
Gene is expressed in 0 tissues Binary
Gene is expressed in 7 ≤ tissues ≤ 36 Binary
Protein expression Tissues expressing protein (n) Continuous
Protein is expressed in ≥ 41 tissues Binary
Protein-protein interaction network (PPIN) PPIN degree Continuous
Protein is a PPIN hub Binary
PPIN betweenness Continuous
PPIN clustering coefficient Continuous
Protein complexes Complexes the protein is part of (n) Continuous
miRNA interactions miRNAs targeting the gene (n) Continuous
Gene evolutionary origin Pre-metazoan origin Binary
Metazoan origin Binary
Vertebrate origin Binary
Post-vertebrate origin Binary
  1. PPIN protein-protein interaction network, miRNA micro RNA