TABLE 1.
Many Myc-activated genes are also activated by dHCF in S2 cells
Relative expression levels of previously identified Myc target genes (Ref. 10, supplemental Table S2) at the indicated times after addition of Myc- or dHCF-dsRNA were determined with quantitative real-time PCR (column labeled “PCR”) or with microarrays (all other columns); the data for Myc-RNAi are taken from (Ref. 10, supplemental Table S2). As control, cells were treated with Luciferase-dsRNA (control for column “dHCF-RNAi 3 d”) or GFP-dsRNA (all other columns); the indicated values represent relative reductions of expression in response to dHCF- or Myc-RNAi. Genes printed in italics and boldface are significantly affected by dHCF-RNAi (adjusted p value <0.05). The column labeled “dHCF ChIP” shows the position of the closest dHCF binding site and the column “Myc E-box” indicates the position of consensus Myc binding sites, in nucleotides relative to the transcription start site. The dHCF-RNAi and -ChIP results are from whole genome analyses to be described elsewhere (Footnote 5).
| Gene | dHCF RNAi |
Myc RNAi |
dHCF ChIP | Myc E-box | |||
|---|---|---|---|---|---|---|---|
| 3 d | 6 h | 12 h | 2 d | 2 d PCR | |||
| Ribosome biogenesis/rRNA processing | |||||||
| Fib | 1.4 | 1.8 | 3.5 | 2.8 | 2.4 ± 0.1 | −93 | 26, 834 |
| hoip | 1.3 | 1.6 | 3.4 | 2.0 | 1.6 ± 0.4 | −23 | −15 |
| NHP2 | 1.3 | 2.1 | 2.5 | 2.3 | −1 | 41 | |
| nnp-1 | 1.7 | 2.4 | 2.5 | 1.9 ± 0.2 | 35 | 29 | |
| nop5 | 1.5 | 1.7 | 2.7 | 2.6 | 2.5 ± 0.6 | −23 | −509, −9 |
| nop56 | 1.4 | 1.6 | 2.5 | 2.5 | 2.1 ± 0.2 | −56 | 29 |
| nopp140 | 2.3 | 2.5 | 1.9 | 1 | 48, 385 | ||
| pit | 1.7 | 2.4 | 2.2 | −80 | |||
| CG1381 | 1.2 | 1.6 | 2.3 | 2.1 | −41 | 29 | |
| CG1542 | 2.1 | 2.3 | 2.0 | 11 | 78 | ||
| CG4038 | 1.8 | 2.6 | 2.3 | −14 | 36 | ||
| CG4364 | 1.6 | 1.8 | 2.3 | 2.2 | 4 | −421 | |
| CG5033 | 1.2 | 1.6 | 2.2 | 1.8 | −19 | 21 | |
| CG5728 | 1.9 | 2.4 | 1.7 | −51 | 31, 789 | ||
| CG6712 | 1.3 | 2.6 | 3.7 | 2.8 | 1.6 ± 0.4 | 7 | 46 |
| CG8939 | 1.2 | 1.8 | 2.7 | 2.0 | −34 | 15 | |
| CG9799 | 1.8 | 2.1 | 1.8 | no peak | 6, 44 | ||
| Other/unknown | |||||||
| FK506-bp1 | 1.7 | 1.9 | 1.7 | −43 | −114, 216 | ||
| I(2)09851 | 1.7 | 2.3 | 1.7 | −7 | 35, 830 | ||
| mbm | 2.4 | 3.7 | 2.7 | 423 | 416 | ||
| rrp46 | 2.2 | 2.1 | 2.2 | −18 | |||
| CG1234 | 2.0 | 3.0 | 2.2 | −9 | |||
| CG1785 | 1.9 | 2.4 | 2.1 | −16 | −454, 19 | ||
| CG6751 | 1.7 | 2.2 | 2.0 | 57 | −641, 29 | ||
| CG7845 | 1.3 | 2.9 | 3.5 | 2.0 | 58 | −697, 24 | |
| CG10341 | 1.3 | 1.5 | 2.3 | 1.7 | 1 | 17 | |
| CG10805 | 1.3 | 2.1 | 2.7 | 2.0 | −61 | −13 | |
| CG11660 | 2.3 | 2.1 | 2.0 | 21 | 224 | ||
| CG15019 | 2.0 | 2.0 | 1.7 | −31 | −85, 936 | ||
| CG30349 | 1.8 | 2.7 | 2.1 | 19 | 90, 236 | ||