Table 11.

Performances of the task of named entity recognition in terms of F1-score (and its standard deviation in brackets, for the last setting).

Entity matching: (exact or partial)	exact	exact	partial	partial
Considering hierarchy: (yes or no)	no	yes	no	yes
Chemical	76.07	76.07	82.67	82.67 (7.24)
Genomic_factor	22.86	71.41	27.68	83.19 (5.90)
↳Gene_or_protein	85.72	85.72	90.58	90.05 (3.89)
↳Genomic_variation	2.67	49.13	3.83	71.18 (9.55)
↳Limited_variation	47.08	47.02	72.71	71.57 (9.50)
↳Haplotype	66.97	66.97	72.47	72.47 (19.34)
Phenotype	31.76	50.80	48.48	69.57 (5.40)
↳Disease	66.90	66.88	75.68	72.59 (7.30)
↳Pharmacokinetic_phenotype	29.30	29.30	36.47	36.27 (19.40)
↳Pharmacodynamic_phenotype	38.54	38.50	58.84	58.18 (10.11)
Macro average	49.15	59.11	59.76	71.93 (5.64)

Balance between precision and recall, as well as details on standard deviations are provided in Supplementary Table S1.