Figure 1

Scheme of computational and biological procedures. For computational analysis, five mouse EST sets were used (retina, cerebellum, lung, CNS, and whole EST). All ESTs were filtered through a non-redundant procedure (details in additional data file 1 and 2). The whole set of RTCs representing all retina transcripts was called RTC-All (RTC-A). Then RTC-A were subtracted with CNS and whole mouse ESTs to generate RTC-N and RCT-R pool. Cleaned cerebellum and lung EST pool were used as internal control. In microarray assays, tissues from PN21 mouse retina, brain, and other body regions were used for comparison of gene expression to verify RTC-R. Gene expression profiles from PN21/PN1 retina comparisons represented a set of genes involved in late-born retina development. By comparison of this set with RTC-R, RTC related to late-born retina cell development were generated (RTC-L). PN35 wild-type retina was used to compare with rd1 mutant retina at same age. Results from this subtraction represent a set of genes whose expression is associated with rod photoreceptors (RTC-P).