Table 2.

Hyperparameters of BiNE for different datasets

Parameter names	Nuclear receptors	Ion channels	GPCR	Enzymes	DrugBank
Maximum iterations	100	100	100	1000	100
Learning rate	0.1	0.1	0.1	0.1	0.01
Number of negative samples $\mathrm{ns}$	4	4	4	4	2
Size of window $\mathrm{ws}$	5	7	5	5	5
Trade-off parameter α	0.01	0.01	0.01	0.01	0.01
Trade-off parameter β	0.1	0.1	0.1	0.1	0.01
Trade-off parameter γ	0.1	1	0.1	0.1	0.1
Embedding size of BiNE	64	128	32	128	128
Embedding size of drug-target pairs	128	256	64	256	256
Walk stopping probability	0.15	0.15	0.15	0.15	0.15
Walk restart probability	0.7	0.7	0	0.7	0.7