Table 2 Comparisons of penalized likelihood methods and group ISIS procedure 2 at medium noise level over 20 data sets
From: Detection of rare functional variants using group ISIS
Noise level | Penalized likelihood method | Group ISIS procedure 2 | ||||||
|---|---|---|---|---|---|---|---|---|
| Â | Group MCP (with AIC) | Group MCP (with BIC) | Group LASSO (with AIC) | Group LASSO (with BIC) | Group MCP (with AIC) | Group MCP (with BIC) | Group LASSO (with AIC) | Group LASSO (with BIC) |
Q1 | Â | Â | Â | Â | Â | Â | Â | Â |
NTP | 4.2 (0.4) | 3.7 (0.6) | 1.1 (0.4) | 1.1 (0.3) | 4.3 (0.5) | 3.8 (0.5) | 4.3 (0.6) | 3.0 (0.9) |
NFP | 86.1 (6.2) | 7.0 (1.9) | 205.6 (23.8) | 117.2 (20.4) | 5.0 (1.8) | 1.1 (0.9) | 2.1 (2.8) | 0.1 (0.3) |
FDP (%) | 95.3 (0.6) | 64.2 (9) | 99.5 (0.2) | 99.0 (0.3) | 52.2 (10.7) | 18.8 (14.1) | 21.9 (26.5) | 2.1 (8.3) |
Q2 | Â | Â | Â | Â | Â | Â | Â | Â |
NTP | 10.9 (0.9) | 6.3 (0.6) | 3.5 (1.3) | 3.2 (1.3) | 8.4 (1.2) | 5.8 (1.5) | 8.6 (1.6) | 8.2 (1.8) |
NFP | 55.7 (6.8) | 7.5 (2.2) | 160.3 (30.0) | 99.0 (27.1) | 10.8 (3.7) | 2.3 (1.3) | 10.6 (2.0) | 4.2 (2.5) |
FDP (%) | 83.5 (2.1) | 53.2 (9.2) | 97.7 (1.1) | 96.8 (1.4) | 55.0 (9.8) | 27.9 (14.8) | 55.1 (6.3) | 31.6 (15.0) |