Table 1.
Result of MAGENTA analysis. As database for comparison, Ingenuity and BIOCARTA were used.
| Database | Gene signaling | Number | MEAN | P-value | FDR | Expected | Observed |
|---|---|---|---|---|---|---|---|
| Ingenuity | Neuregulin.Signaling | 27 | 92 | 3.30E-03 | 1.27E-01 | 3 | 8 |
| Ingenuity | TR.RXR.Activation | 62 | 75 | 5.60E-03 | 9.83E-02 | 6 | 13 |
| Ingenuity | Apoptosis.Signaling | 31 | 54 | 7.30E-03 | 1.13E-01 | 3 | 8 |
| Ingenuity | Sonic.Hedgehog.Signaling | 10 | 62 | 1.11E-02 | 1.52E-01 | 1 | 4 |
| Ingenuity | Amyotrophic.Lateral.Sclerosis.Signaling | 29 | 89 | 1.73E-02 | 1.69E-01 | 3 | 7 |
| Ingenuity | PI3K.AKT.Signaling | 29 | 57 | 2.30E-02 | 1.96E-01 | 3 | 7 |
| Database | Gene signaling | Original number | MEAN | P-value | FDR | Expected | Observed |
|---|---|---|---|---|---|---|---|
| BIOCARTA | CTCF_PATHWAY | 23 | 58 | 1.00E-04 | 1.64E-02 | 2 | 9 |
| BIOCARTA | MTOR_PATHWAY | 23 | 59 | 3.00E-04 | 3.13E-02 | 2 | 9 |
| BIOCARTA | P35ALZHEIMERS_PATHWAY | 11 | 79 | 2.70E-03 | 6.02E-02 | 1 | 5 |
| BIOCARTA | IGF1MTOR_PATHWAY | 20 | 76 | 8.30E-03 | 2.18E-01 | 2 | 6 |
| BIOCARTA | WNT_PATHWAY | 26 | 72 | 1.30E-02 | 2.43E-01 | 3 | 7 |
| BIOCARTA | BCELLSURVIVAL_PATHWAY | 16 | 51 | 1.36E-02 | 2.56E-01 | 2 | 5 |
| BIOCARTA | RAS_PATHWAY | 23 | 59 | 1.52E-02 | 2.39E-01 | 2 | 6 |
| BIOCARTA | ACH_PATHWAY | 16 | 72 | 1.61E-02 | 2.69E-01 | 2 | 5 |
| BIOCARTA | PAR1_PATHWAY | 37 | 132 | 1.67E-02 | 2.57E-01 | 3 | 8 |
| BIOCARTA | NGF_PATHWAY | 18 | 50 | 2.20E-02 | 2.45E-01 | 2 | 5 |
| BIOCARTA | ALK_PATHWAY | 37 | 72 | 2.28E-02 | 2.96E-01 | 4 | 8 |
| BIOCARTA | EIF4_PATHWAY | 24 | 109 | 2.78E-02 | 3.20E-01 | 2 | 6 |
| BIOCARTA | MITOCHONDRIA_PATHWAY | 21 | 39 | 2.94E-02 | 3.08E-01 | 2 | 5 |
| BIOCARTA | BAD_PATHWAY | 26 | 80 | 3.27E-02 | 2.61E-01 | 3 | 6 |
| BIOCARTA | DC_PATHWAY | 22 | 11 | 3.32E-02 | 2.65E-01 | 2 | 5 |
| BIOCARTA | TOB1_PATHWAY | 21 | 49 | 3.36E-02 | 2.81E-01 | 2 | 5 |
| BIOCARTA | DEATH_PATHWAY | 33 | 43 | 3.58E-02 | 2.96E-01 | 3 | 7 |
| BIOCARTA | STATHMIN_PATHWAY | 19 | 82 | 3.73E-02 | 2.64E-01 | 2 | 5 |
| BIOCARTA | G1_PATHWAY | 28 | 65 | 4.41E-02 | 2.91E-01 | 3 | 6 |
Number: original numbers included in signaling.
MEAN: mean gene size.
FDR: False discovery rate.
Expected: expected number of genes.
Observed: actually observed number of genes.
The genes in Bold were significant in GSEA.