Relationship between conserved Rpn4p-binding sites and expression. (a) We identified 56 Rpn4p-binding sites with p-values below 1.85 × 10-8 using all five species and the HB model. The expression patterns of these genes (clustered and displayed as in ) fall into two major groups: the 'stereotypical' proteasomal pattern (indicated by a blue bar at the right), and a second group expressed in these and additional conditions (indicated by the green bar). The orange bars above the expression data correspond to (left to right) temperature changes, treatment with H2O2, treatment with the superoxide generating drug menadione, treatment with the sulfhydryl oxidant diamide, deletions of YAP1 and MSN2/4, treatment with the DNA damaging agent methylmethanesulfonate (MMS), and heat shock in deletions of MEC1 and DUN1 [48,49]. (b) Examples of conserved Rpn4p sites (boxed) that do not fall in either expression group (neither blue nor green bar).
Moses et al. Genome Biology 2004 5:R98 doi:10.1186/gb-2004-5-12-r98