Skip to main content

Table 1 Comparison of multiple algorithms used to generate Arabidopsis Immune Co-expression (AICR) Network

From: Expression-based network biology identifies immune-related functional modules involved in plant defense

Algorithm Threshold Nodes Edges
PCC K = 3 Top 3 8250 1371822
PCC K = 10 Top 10 8336 1374677
PCC K = 20 Top 20 8358 1379968
PCC K = 50 Top 50 8369 1396874
PCC K = 100 Top 100 8373 1453118
PCC K = 250 Top 250 8377 1758775
PCC 90.00% 8377 2755191
ARACNE additive 90.00% 1999 10253
ARACNE multiplicative 90.00% 1999 10253
MRNET 90.00% 1999 3493
CLR 90.00% 12 11
ARACNE additive 80.00% 5147 32972
ARACNE multiplicative 80.00% 5147 38610
MRNET 80.00% 5058 6049
CLR 80.00% 57 60
  1. PCC, pearson correlation coefficients; ARACNE, algorithm for the reconstruction of accurate cellular networks; CLR, context likelihood of relatedness; MRNET, minimum redundancy NETwork.