Table 3.

Clone Linking Results

Tissue		STACK		Sanigene
Tissue		Total linked sets	Linked consensus clusters and singles	Nonlinked consensus clusters	Total consensus clusters (%)	Nonlinked singles	Total singles (%)	Total linked sets	Linked consensus	Nonlinked consensus clusters	Total consensus clusters (%)
Adipose	0	0	181	100	1,693	100	0	0	181	100
Brain	13,157	35,123	4,282	19	25,688	61	52,909	11,490	11,358	50
Connective	1,561	3,433	3,266	71	10,599	84	10	20	690	97
Cochlea	323	666	601	85	1,416	72	86	183	4,462	96
Digestive	2,165	4,915	4,761	71	14,456	83	188	384	6,350	94
Disease	6,106	14,103	6,623	53	20,926	72	725	1,477	11,036	89
Eye	3,988	8,616	1,027	30	7,672	55	699	1,424	2,024	59
Genomic	4,168	9,131	9,997	74	29,221	84	665	1,358	10,949	89
Gland	5,056	11,275	7,242	59	19,624	76	323	655	14,070	96
Heart	3,630	7,937	5,462	65	15,724	76	295	594	7,747	93
Hematolymph	10,952	25,388	9,648	56	33,996	66	1,432	2,958	14,419	83
Lung	4,222	9,640	5,142	60	13,901	69	339	694	7,860	92
Muscle	1,164	2,694	622	53	2,400	53	52	112	1,071	91
Olfactory	458	944	138	56	644	44	21	42	206	83
Other	3,700	8,901	929	22	3,877	41	656	1,346	2,969	69
Reproductive	8,051	26,475	11,268	47	29,991	69	1,854	3,916	20,249	84
Totals	68,701	169,241	71,189	50	231,828	70	12,635	26,653	115,641	81

Clone-ID annotations are grouped for all ESTs in a cluster, after which clusters or singletons containing matching clone IDs are added to a linked set. The process is continued until no additional clone ID partners can be found. Each linked set may therefore contain singleton sequences and a cluster consensus; hence, the linking success rate is expressed in terms of the fractions of consensus and singletons that remain nonlinked.

A Comprehensive Approach to Clustering of Expressed Human Gene Sequence: The Sequence Tag Alignment and Consensus Knowledge Base