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Table 1 Features used in this study

From: Towards accurate imputation of quantitative genetic interactions

Feature group Characteristic Number of features Data source Previous use for GI prediction
NETWORK Physical interaction 1 BioGrid [28] [13, 20]
  Shortest physical path 1 BioGrid [28] [13, 20]
  Mutual clustering coefficient 1 BioGrid [28] [13, 20]
  Network degree 6 BioGrid [28] and E-MAP [20]
  2-hop 6 BioGrid [28] and the E-MAP [13]
GENOMIC Sequence similarity (BLAST E-value) 1 [45] [13]
  Occurrence in a specific protein complex 32 MIPS [42] -
  Co-occurrence in any protein complex 1 MIPS [42] [13]
  Deletion phenotype 53 MIPS [42] -
  A common deletion phenotype 1 MIPS [42] [13]
  Correlation of quantitative phenotype profiles 1 [44] -
  Gene Ontology semantic similarity 3 GO [58] [13]
  Subcellular localization 17 [46] -
  A common subcellular localization 1 [46] [13]
  S-score in S. pombe 1 [11] -
  mRNA expression (correlation) 7 [4753] [13]
GSG S-score between A and genes similar to B (or vice versa) 10 E-MAP -
GSG-MATRIX S-scores among genes similar to A and to genes similar to B 25 E-MAP -
  1. The features are computed for every pair (A-B) of genes. Numbers of certain features depend on the E-MAP and are reported for the ChromBio E-MAP. SL, synthetic lethal; SS, synthetic sick.