Table 1a.

Summary of the known splice variant proteins identified from SKBR3, SUM190 and SUM149 analyses

Cell line studied	No. of total distinct peptides identified *	No. of distinct known splice variant proteins with peptide evidence	Total no. of distinct known splice variant proteins identified with peptide and transcript evidence	No. of distinct genes with at least one of its splice variant protein identified with peptide and transcript evidence	No. of distinct genes with more than one splice variant proteins identified with peptide and transcript evidence
SKBR3	8565	4478	2684	1362	712 (2034)**
SUM190	4361	3161	1886	894	508 (1500) **
SUM149	8838	4598	3124	1435	831 (2520)**

^*Only peptides with < 1% FDR used in the analyses

^**Number in parentheses indicate the total number of distinct splice variant proteins identified from these genes