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Table 4 Searching accuracy for retrieving potential compound-gene bindings

From: edge2vec: Representation learning using edge semantics for biomedical knowledge discovery

algorithm P@10 P@100 Recall@10 Recall@100 MAP NDCG MRR
DeepWalk 0.0623 0.0198 0.0725 0.2780 0.0707 0.1444 0.1502
LINE 0.0186 0.0069 0.0109 0.0360 0.0042 0.0234 0.0532
node2vec 0.0714 0.0277 0.0859 0.2804 0.0786 0.1690 0.1676
metapath2vec (Co-Dr-Ge-Dr-Co) 0.0000 0.0001 0.0000 0.0011 0.0000 0.0004 0.0001
metapath2vec++ (Co-Dr-Ge-Dr-Co) 0.0157 0.0039 0.0082 0.0200 0.0040 0.0172 0.0509
edge2vec 0.0843* 0.0329* 0.0990* 0.3092* 0.0809* 0.1840* 0.1882*
  1. Symbol “*” highlights the cases where our model significantly beats the best baseline with p value smaller than 0.01