A comprehensive transcript index of the human genome generated using microarrays and computational approaches

Table 1 Comparison of locus projections in the PTI on chromosomes 20 and 22 to Sanger-annotated genes

		Sanger chromosome 20, genes	Non-Sanger chromosome 20, genes	Sanger chromosome 22, genes	Non-Sanger chromosome 22, genes
Sanger genes (including pseudogenes)		1,297		936
Locus projection categories
High-confidence categories	RefSeq	676 (30)	8	375 (47)	12
	Ab initio + expressed sequence + protein	336 (63)	10	285 (127)	10
	Ab initio + expressed sequence	38 (2)	96	28 (7)	74
	Ab initio + protein	28 (11)	37	31 (18)	29
	Expressed sequence + protein	38 (30)	37	36 (30)	24
Low-confidence categories	Ab initio	22 (4)	674	50 (21)	362
	Protein	17 (14)	157	18 (13)	121
	Expressed sequence	22 (2)	1,591	31 (7)	1,127
Higher-confidence categories		1,116 (136)	188	755 (229)	149
All categories		1,177 (156)	2,610	854 (270)	1,759

Columns 1 and 3 provide the number of locus projections in the PTI set that overlap Sanger genes for chromosomes 20 and 22, respectively. The numbers given in parentheses indicate the number of Sanger-annotated pseudogenes; these pseudogenes were not used when summarizing the results. Columns 2 and 4 give the number of genes in the PTI set that were not overlapping Sanger genes.

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