Accurate and unambiguous tag-to-gene mapping in serial analysis of gene expression

BMC Bioinformatics

Table 3 Odds ratios for hierarchical genome assignments of SAGE tags

		TAG
		Transcript without internal polyadenylation sites						Poly(A) next	Intergenic
		TAG position from 3'-UTR end
		1	2	3	4	5	>= 6	Any	N.A.
	Probability	0.863	0.140	0.048	0.021	0.021	0.018	0.347	0.113
1	0.863	1.00	6.16	18.17	41.31	41.31	47.16	2.49	7.64
2	0.140	0.16	1.00	2.95	6.71	6.71	7.66	0.40	1.24
3	0.048	0.06	0.34	1.00	2.27	2.27	2.60	0.14	0.42
4	0.021	0.02	0.15	0.44	1.00	1.00	1.14	0.06	0.18
5	0.021	0.02	0.15	0.44	1.00	1.00	1.14	0.06	0.18
>= 6	0.018	0.02	0.13	0.39	0.88	0.88	1.00	0.05	0.16
Poly(A) next	0.347	0.40	2.48	7.30	16.61	16.61	18.96	1.00	3.07
Intergenic	0.113	0.13	0.81	2.38	5.41	5.41	6.17	0.33	1.00

Odds ratios between all possible pairs of tag types are calculated based on the eight probabilities of experimental observation shown in Figure 2. These probabilities are included in the third row and in the second column of the table, while the tag type descriptions are provided in the first two rows and in the first column of the table. Odds ratios are calculated by considering in the numerator the probability of the tag type shown in each row; the corresponding probability of the tag type shown in each column is used in the denominator. Odds ratios higher than 5.0 are highlighted with bold type font.

ISSN: 1471-2105