Table 1. Proteins interacting with ASH1 mRNA identified in replicate dye-swap protein microarray experiments.

Protein	Description	Function	Avg Cy3	Avg Rank Cy3	Avg Cy5	Avg Rank Cy5	pI	Abundance
She2	RBP that interacts with She3p; restricts accumulation of certain proteins to the bud	mRNA binding	17.1	3	17.8	18	4.7	4,070
YDL124W	NADPH-dependent alpha-keto amide reductase	alpha-keto ester reductase activity	11.9	5	14.6	22	6.1	4,030
Gcy1	Putative NADP(+) coupled glycerol dehydrogenase	oxidoreductase activity	8.9	8	19.6	17	8.2	NA
Npl3	RBP that promotes elongation, regulates termination, and carries poly(A) mRNA from nucleus to cytoplasm; required for pre-mRNA splicing	mRNA binding	7.1	12	153.8	1	5.4	78,700
Rrp5	RBP; preference for tracts of U's; synthesis of both 18S and 5.8S rRNAs	mRNA binding	3.8	20	14.6	23	6.1	8,860
Pcs60	AMP-binding protein; peroxisomal peripheral membrane and matrix	ligase activity	3.7	21	89.8	4	10.0	8,770
Khd1	RBP that represses translation of ASH1 mRNA; regulates telomere position effect and length	mRNA binding	3.4	24	24.0	15	6.0	15,600
Scp160	RBP; mating response pathway; nuclear envelope and ER; interacts with translating ribosomes	mRNA binding	2.9	29	117.7	3	5.7	NA
Mdh3	Peroxisomal malate dehydrogenase	dehydrogenase activity	2.9	31	60.2	8	10.0	3,300

These proteins had normalized mean signal over median background signal (for the ASH1 Cy-dye channel) equal to or greater than two SD above the mean for each microarray experiment. Annotated RBPs are identified by bold text. ASH1mRNA microarray signal (Cy3 or Cy5) and rank are averaged over two replicates for each dye. Protein abundance data are taken from [1], protein isoelectric point from [8].