From: Improving gene set analysis of microarray data by SAM-GS
Gene Set | GSEA | SAM-GS | p53 link | ||
---|---|---|---|---|---|
 | FDR | p-value | FDR | p-value |  |
ATM Pathway | 0.87 | 0.21 | ≤ 0.01 | < 0.001 | Pathway member |
BAD Pathway | 0.57 | 0.04 | ≤ 0.01 | < 0.001 | Apoptosis |
Calcineurin Pathway | 0.84 | 0.13 | ≤ 0.01 | < 0.001 | p53-induced proline oxidase mediates apoptosis via a calcineurin-dependent pathway (12) |
Cell cycle regulator | 0.90 | 0.29 | ≤ 0.01 | < 0.001 | Cell cycle |
Mitochondria pathway | 0.88 | 0.32 | ≤ 0.01 | < 0.001 | Apoptosis |
p53 signaling pathway | 0.51 | 0.01 | ≤ 0.01 | < 0.001 | Pathway member |
Raccycd Pathway | 0.83 | 0.56 | ≤ 0.01 | < 0.001 | Cell cycle |
SA_TRKA_RECEPTOR | 0.83 | 0.34 | ≤ 0.01 | < 0.001 | Integrated negative feedback loop between Akt and p53 (11) |
bcl2family and reg. network | 0.83 | 0.42 | ≤ 0.01 | 0.001 | Apoptosis |
Cell cycle arrest | 0.98 | 0.49 | ≤ 0.01 | 0.001 | Cell cycle |
Ceramide Pathway | 0.88 | 0.30 | ≤ 0.01 | 0.001 | Apoptosis |
DNA DAMAGE SIGNALLING | 0.85 | 0.23 | ≤ 0.01 | 0.002 | Pathway member |
SIG_IL4RECEPTOR IN_B_LYMPHOCYTES | 0.93 | 0.27 | ≤ 0.01 | 0.002 | Cytokines; JAK/STAT signaling |
Cell cycle Pathway | 0.89 | 0.72 | ≤ 0.01 | 0.003 | Pathway member |
G2 Pathway | 0.81 | 0.50 | ≤ 0.01 | 0.003 | Pathway member |
Chemical Pathway | 0.53 | 0.04 | ≤ 0.01 | 0.005 | Pathway member |
Drug resistance and metabolism | 0.86 | 0.08 | ≤ 0.01 | 0.005 | Pathway member |
G1 Pathway | 0.81 | 0.37 | ≤ 0.01 | 0.005 | Pathway member |
Breast cancer estrogen signaling | 1.00 | 0.85 | ≤ 0.01 | 0.006 | Pathway member |
Ca_nf_at_signaling | 0.78 | 0.08 | ≤ 0.01 | 0.007 | Apoptosis (and cytokines) |
Cytokine Pathway | 0.53 | 0.05 | ≤ 0.01 | 0.007 | Cytokines |
ST_Interleukin_4_Pathway | 0.84 | 0.07 | ≤ 0.01 | 0.007 | Cytokines; JAK/STAT signaling |
CR_DEATH | 0.86 | 0.31 | ≤ 0.01 | 0.008 | Pathway member |
MAP00860: Porphyrin & chlorophyll metabolism | 0.92 | 0.29 | ≤ 0.01 | 0.010 | CPO regulated by p53 (13) |
Ck1 Pathway | 0.49 | 0.02 | ≤ 0.01 | 0.011 | Cdk5 phosphorylates p53 (9) |
Hivnef Pathway | 0.95 | 0.48 | ≤ 0.01 | 0.011 | Apoptosis |
Ets Pathway | 0.79 | 0.45 | ≤ 0.01 | 0.012 | Ets1 required for p53 transcriptional activation in UV-induced apoptosis (10) |
ST_Wnt_Ca2_cyclic_GMP_Pathway | 0.80 | 0.13 | ≤ 0.01 | 0.012 | At least one known link between wnt and p53 (14) |
Chrebp Pathway | 0.84 | 0.42 | ≤ 0.01 | 0.013 | unknown |
GPCRs_Class_A_Rhodopsin-like | 0.60 | 0.04 | ≤ 0.01 | 0.013 | unknown |
ST_Fas_Signaling_Pathway | 0.80 | 0.52 | ≤ 0.01 | 0.013 | Pathway member |