A comparison of approaches to accessing existing biological and chemical relational databases via SPARQL

Table 2 Method performance

Method			Queries not completed within the time limit (%)
System	Approach	Parallel	0.1 s	1 s	10 s	100 s	1000 s
Ontop/MariaDB	String	No	63.57	33.57	19.29	11.43	4.29
Ontop/MariaDB	Combined	No	62.14	32.14	18.57	7.86	0.71
Ontop/PostgreSQL	String	No	69.29	42.14	21.43	10.71	2.86
Ontop/PostgreSQL	Combined	No	65.71	35.71	22.86	11.43	4.29
Ontop/PostgreSQL	String	Yes	70.00	36.43	14.29	5.71	1.43
Ontop/PostgreSQL	Combined	Yes	67.86	32.86	16.43	7.14	2.86
IDSM SPARQL engine	String	No	64.29	31.43	15.00	5.71	2.14
IDSM SPARQL engine	Combined	No	64.29	30.71	17.14	4.29	2.14
IDSM SPARQL engine	Integer	No	59.29	30.71	12.86	4.29	2.86
IDSM SPARQL engine	String	Yes	64.29	27.14	11.43	3.57	1.43
IDSM SPARQL engine	Combined	Yes	64.29	28.57	13.57	3.57	2.14
IDSM SPARQL engine	Integer	Yes	57.14	25.00	11.43	3.57	2.14
Virtuoso	String	No	57.86	34.29	16.43	5.71	1.43
Virtuoso	Combined	No	65.71	35.00	15.71	8.57	3.57
Virtuoso	Integer	No	50.71	23.57	10.71	2.14	1.43
Virtuoso	Native	No	35.00	17.14	6.43	2.14	0.71
Virtuoso	String	Yes	55.00	33.57	14.29	2.86	0.71
Virtuoso	Combined	Yes	62.86	34.29	14.29	5.71	2.86
Virtuoso	Integer	Yes	48.57	23.57	9.29	2.86	1.43
Virtuoso	Native	Yes	34.29	15.71	6.43	1.43	0.71
Blazegraph	Native	No	65.00	36.43	20.71	11.43	6.43
GraphDB	Native	No	65.00	40.00	27.14	5.00	2.86
Jena TDB2	Native	No	83.57	46.43	38.57	16.43	4.29

ISSN: 1758-2946