A new synonym-substitution method to enrich the human phenotype ontology

BMC Bioinformatics

Table 5 Results for the two methods on the abstract collection on hereditary diseases, using the Obo Annotator. They are expressed in terms of the number annotated abstracts by each method. The increase rate is percent change in total annotations. Additionally, theresults are disaggregated by IC and number of abstracts annotated per term

IC	# Abstracts per term	# Terms	% Terms	# Annotated Abstracts (Baseline)	# Annotated Abstracts (with generated synonyms)	Increase rate of annotated abstracts
[0,1)	>1000	0		0	0	0
	[100–1000)	0		0	0
	(0–100)	1	1	2	2	100
	Total	1	1	2	2	100
[1,2)	>1000	3	8	7061	7126	1
	[100–1000)	18	49	6799	7648	12
	(0–100)	16	43	308	449	46
	Total	37	100	14,168	15,223	7
[2,3)	> 1000	10	6	90,065	90,175	0
	[100–1000)	60	39	17,265	19,655	14
	(0–100)	84	55	3192	4007	26
	Total	154	100	110,522	113,837	3
[3,4)	> 1000	0	0	0	0	0
	[100–1000)	32	14	7366	8377	14
	(0–100)	200	86	2004	4041	102
	Total	232	100	9370	12,418	33
undefined	> 1000	0		0	0
	[100–1000)	0		0	0
	(0–100)	64	100	305	561	84
	Total	64	100	305	561	84
Total	> 1000	13	3	97,126	97,301	0
	[100–1000)	110	23	31,430	35,680	14
	(0–100)	365	75	5811	9060	56
	Total	488	100	134,367	142,041	6

ISSN: 1471-2105