Table 4.
Enriched clusters of gene annotation terms for host (mouse) genes up-regulated (A) or-down-regulated (B) by metronomic CPA treatment in both U251 and 9L tumors
| Cluster name | Cluster enrichment score | Number of genes (top term) | p-value (top term) |
|---|---|---|---|
| A. Up-regulated mouse gene clusters | |||
| Glycoprotein | 23.1 | 342 | 5.16E-37 |
| Immune response | 13.7 | 87 | 1.11E-26 |
| Cell surface | 8.80 | 53 | 8.91E-14 |
| Lysosome | 7.38 | 31 | 2.29E-08 |
| Extracellular membrane | 6.77 | 191 | 4.07E-12 |
| Regulation of cytokine production | 6.44 | 28 | 9.78E-10 |
| Carbohydrate binding | 5.64 | 41 | 5.09E-08 |
| Positive regulation of immune system process | 4.69 | 41 | 8.70E-14 |
| Cytokine-cytokine receptor interaction | 4.10 | 36 | 1.79E-07 |
| Lipid catabolic process | 3.60 | 23 | 7.60E-07 |
| Induction of programmed cell death | 3.24 | 24 | 9.43E-06 |
| Cell/leukocyte activation | 3.22 | 35 | 6.63E-08 |
| B. Down-regulated mouse gene clusters | |||
| (Positive) regulation of transcription | 10.3 | 71 | 1.06E-13 |
| Cell division | 9.31 | 44 | 4.73E-13 |
| Repressor, negative regulation of gene expression | 5.57 | 43 | 5.73E-08 |
| Cell migration | 4.81 | 28 | 6.05E-06 |
| Spindle | 4.58 | 20 | 1.22E-07 |
| Skeletal system development | 4.30 | 32 | 2.56E-06 |
| Tube development | 4.09 | 29 | 1.27E-05 |
| Transcription factor complex | 3.80 | 27 | 5.88E-06 |
| Microtubule cytoskeleton organization | 3.46 | 16 | 9.14E-05 |
| Sequence-specific DNA binding/Homeodomain | 3.04 | 52 | 4.54E-07 |
Analysis was based on genes that respond to metronomic CPA treatment cycles at |fold-change| >1.5 and p-value < 104 at either, or both U251 treatment time points, and also in 9L tumors. Shown are clusters with enrichment scores >3.0 whose top term contains >15 genes. Also shown is the number of genes and p-value for the top term in each cluster. See Additional files 1: Table S5A and S5B for a more complete listing of significant enrichment clusters and associated gene lists.