Table 2. Differentially expressed and spliced transcripts.

	Long slender/short stumpy	Short stumpy/procyclic	Long slender/procyclic	Total1
Significantly regulated genes	1226	2675	3296	3554, (3215)4
Upregulated2	769	1248	1286
Downregulated3	457	1427	2010
Differentially spliced	158	415	458	676
Alternatively spliced	1523	1531	1267	2637
Alternatively spliced ≥5 tags	874	783	872	1588

¹total number of regulated/spliced transcripts, non-redundant.

²upregulated in long slender when compared with short stumpy, short stumpy vs procyclics and long slender vs procyclics.

³downregulated in long slender versus short stumpy, short stumpy versus procyclics and long slender vs procyclics.

⁴significantly regulated ([28]; threshold of P<10⁻⁵) and ≥2× change.