Figure 3

PET-to-pathway display. The KEGG pathway display (I) was modified to reflect library information. Solid squares were added to the upper left corner of the gene box (green icon, with 4 numbers to represent a particular KEGG gene ID). Each square is associated with a library and highlighted with red, yellow, or blue color to indicate that gene isoforms are all matched, partially matched, or completely unmatched, respectively, by PETs of the library. By placing the cursor on a particular entity (mouse on), one can view the description of all gene isoforms in the gene box (II), or PET counts, in cpm (counts per million), of a corresponding gene isoform for each library (III & IV). In response to a clicking on a solid square, detailed mapping information is displayed (V). Hyperlinks in II lead to all KEGG pathway images that contain the selected gene isoform.