Different effects of the probe summarization algorithms PLIER and RMA on high-level analysis of Affymetrix exon arrays

Table 3 Numbers of exons located on tissue-specific genes and with tissue-specific splicing, according to TISA database

	# exons with tissue-specific splicing and located on genes with tissue-specific expression (1)	# exons in (1) and were relatively included in that tissue	# exons in (1) and were relatively skipped in that tissue	Chi-square p-value
all	1744	877	867	0.865
3 splicing forms only	647	326	321	0.912
10 tissues only	706	383	323	0.11
3 splicing forms+10 tissues only	246	133	113	0.367
all exons mapped to core probesets	1061	518	543	0.572
3 splicing forms+ mapped to core probesets only	323	158	165	0.813
10 tissues +mapped to core probesets only	413	214	199	0.626
3 splicing forms+10 tissues+ mapped to core probesets only	128	71	57	0.381

ISSN: 1471-2105