Deep and comparative analysis of the mycelium and appressorium transcriptomes of Magnaporthe grisea using MPSS, RL-SAGE, and oligoarray methods

Table 5 Comparison of M. grisea transcriptomes measured by MPSS, RL-SAGE and oligoarray approaches.

Technology Comparison	Correlation coefficient using all tags	Correlation coefficient using only significant tags	Correlation coefficient using tags ≥ 10 copies	Correlation coefficient using tags ≥ 25 copies
Appressoria: MPSS vs microarray ¹	0.59	0.60	0.65	0.69
Appressoria: MPSS vs microarray ²	0.67	0.70	0.74	0.77
Mycelia: MPSS vs microarray ¹	0.17	0.16	0.18	0.16
Mycelia: MPSS vs microarray ³	0.49	0.49	0.51	0.51
Mycelia: RL-SAGE vs microarray ¹	0.2	0.19	0.29	-0.29
Mycelia: RL-SAGE vs microarray ⁴	0.31	0.33	0.64	0.43
Mycelia: MPSS vs RL-SAGE ¹	0.068	NA	NA	NA
Mycelia: MPSS vs RL-SAGE ⁵	0.4	NA	NA	NA

¹Correlation before removing genes.
²Correlation after removing 4 genes out of 1729 genes (Standard residuals range ≤ -5.7 to ≥ 9.4).
³Correlation after removing 10 genes out of 914 genes (Standard residuals range ≤ -1.75 to ≥ 5.3).
⁴ Correlation after removing 14 genes out of 883 genes (Standard residuals range ≤ -1.75 to ≥ 5.3).
⁵ Correlation after removing 18 genes out of 276 genes (Standard residuals range ≤ -0.45 to ≥ 2.8). NA-Not available.

ISSN: 1471-2164