Training fraction Intersection (number of common genes/true-positive rates among common genes) LASSO-pcvl Elastic Net BSS Enet CoxBoost RSF 500 12 1/2 LASSO-cvl 11 (5-29)/0.7 (0.35-1) 25 (7-53)/0.35 (0.15-1) 18 (7-27)/0.47 (0.26-1) 22 (7-40)/0.38 (0.17-1) 6 (1-12)/0.71 (0.2-1) LASSO-pcvl 11 (5-29)/0.7 (0.33-1) 11 (5-24)/0.71 (0.41-1) 11 (5-29)/0.7 (0.33-1) 4 (1-12)/0.86 (0.5-1) Elastic Net 20 (8-29)/0.45 (0.29-0.88) 24 (8-48)/0.35 (0.17-0.78) 7 (3-14)/0.67 (0.2-1) BSS Enet 18 (7-28)/0.44 (0.28-0.8) 7 (1-12)/0.75 (0.25-1) CoxBoost 6 (1-13)/0.71 (0.2-1) 50 1/2 LASSO-cvl 42 (13-74)/0.64 (0.46-0.95) 62 (40-93)/0.49 (0.37-0.65) 40 (28-56)/0.71 (0.52-0.84) 53 (24-80)/0.55 (0.41-0.92) 12 (4-19)/0.79 (0.44-1) LASSO-pcvl 44 (13-74)/0.63 (0.45-0.95) 35 (13-48)/0.74 (0.59-0.95) 42 (13-72)/0.65 (0.45-0.95) 11 (3-18)/0.86 (0.56-1) Elastic Net 43 (29-57)/0.71 (0.52-0.82) 57 (24-79)/0.54 (0.38-0.92) 14 (5-21)/0.77 (0.37-1) BSS Enet 40 (22-53)/0.72 (0.53-0.95) 11 (2-18)/0.89 (0.57-1) CoxBoost 12 (4-20)/0.81 (0.5-1) 750 12 1/2 LASSO-cvl 13 (7-25)/0.69 (0.4-1) 25 (12-50)/0.36 (0.18-0.75) 19 (11-29)/0.47 (0.3-0.79) 23 (12-43)/0.39 (0.2-0.75) 7 (4-12)/0.83 (0.5-1) LASSO-pcvl 13 (7-25)/0.68 (0.4-1) 12 (6-23)/0.73 (0.43-1) 13 (7-24)/0.69 (0.38-1) 6 (3-10)/1 (0.6-1) Elastic Net 22 (11-33)/0.45 (0.3-0.75) 26 (12-50)/0.36 (0.2-0.75) 8 (4-14)/0.8 (0.54-1) BSS Enet 20 (11-33)/0.45 (0.3-0.82) 8 (4-12)/0.86 (0.43-1) CoxBoost 7 (3-12)/0.8 (0.57-1) 50 1/2 LASSO-cvl 43 (27-68)/0.73 (0.5-0.91) 71 (51-90)/0.51 (0.37-0.69) 49 (39-65)/0.7 (0.55-0.85) 60 (36-79)/0.58 (0.43-0.81) 14 (6-22)/0.85 (0.67-1) LASSO-pcvl 44 (27-68)/0.73 (0.5-0.92) 40 (27-57)/0.79 (0.61-0.94) 42 (27-65)/0.74 (0.52-0.92) 12 (7-20)/0.93 (0.71-1) Elastic Net 52 (42-68)/0.68 (0.55-0.83) 62 (36-83)/0.56 (0.43-0.81) 16 (7-23)/0.83 (0.6-1) BSS Enet 47 (34-63)/0.71 (0.56-0.86) 14 (8-22)/0.9 (0.73-1) CoxBoost 14 (6-22)/0.88 (0.71-1) 1000 12 1/2 LASSO-cvl 15 (8-28)/0.59 (0.32-0.92) 34 (11-79)/0.28 (0.11-0.73) 26 (11-51)/0.35 (0.18-0.73) 31 (11-55)/0.29 (0.16-0.73) 8 (4-12)/0.89 (0.45-1) LASSO-pcvl 15 (8-28)/0.59 (0.32-0.92) 15 (8-27)/0.61 (0.33-0.92) 15 (8-28)/0.59 (0.32-0.92) 7 (4-11)/1 (0.62-1) Elastic Net 29 (14-52)/0.34 (0.17-0.61) 34 (16-62)/0.28 (0.14-0.53) 9 (4-12)/0.89 (0.42-1) BSS Enet 27 (13-44)/0.34 (0.2-0.59) 9 (6-12)/0.89 (0.5-1) CoxBoost 8 (4-11)/0.88 (0.6-1) 50 1/2 LASSO-cvl 57 (34-77)/0.72 (0.52-0.97) 90 (70-122)/0.48 (0.35-0.61) 63 (53-88)/0.67 (0.52-0.78) 73 (54-101)/0.57 (0.45-0.78) 18 (13-24)/0.9 (0.71-1) LASSO-pcvl 57 (34-78)/0.72 (0.51-0.97) 53 (34-65)/0.78 (0.63-0.97) 56 (34-76)/0.73 (0.53-0.97) 17 (12-23)/0.94 (0.74-1) Elastic Net 66 (58-89)/0.66 (0.53-0.76) 74 (54-106)/0.56 (0.43-0.78) 20 (14-25)/0.88 (0.71-1) BSS Enet 60 (50-84)/0.7 (0.56-0.81) 19 (13-24)/0.94 (0.79-1) CoxBoost 18 (12-24)/0.94 (0.71-1) 500 12 2/3 LASSO-cvl 13 (7-25)/0.71 (0.4-1) 26 (10-55)/0.38 (0.15-0.8) 20 (9-31)/0.45 (0.3-0.8) 24 (10-46)/0.4 (0.17-0.8) 7 (3-11)/0.75 (0.43-1) LASSO-pcvl 13 (7-26)/0.71 (0.38-1) 13 (7-21)/0.72 (0.48-1) 13 (7-25)/0.71 (0.4-1) 5 (2-10)/1 (0.6-1) Elastic Net 23 (11-33)/0.43 (0.31-0.82) 28 (10-48)/0.34 (0.17-0.71) 7 (4-13)/0.71 (0.4-1) BSS Enet 21 (9-32)/0.44 (0.31-0.78) 7 (4-11)/0.8 (0.5-1) CoxBoost 7 (3-10)/0.71 (0.43-1) 50 2/3 LASSO-cvl 52 (33-71)/0.65 (0.51-0.85) 76 (57-104)/0.49 (0.34-0.61) 51 (43-62)/0.68 (0.56-0.81) 65 (41-93)/0.55 (0.35-0.68) 14 (7-21)/0.83 (0.58-1) LASSO-pcvl 53 (34-72)/0.65 (0.51-0.85) 46 (34-57)/0.73 (0.61-0.92) 51 (33-65)/0.66 (0.56-0.87) 13 (7-19)/0.9 (0.64-1) Elastic Net 54 (45-66)/0.69 (0.56-0.82) 66 (41-99)/0.54 (0.34-0.69) 16 (10-23)/0.8 (0.48-1) BSS Enet 50 (37-60)/0.7 (0.6-0.82) 14 (7-20)/0.92 (0.61-1) CoxBoost 14 (7-21)/0.87 (0.62-1) 750 12 2/3 LASSO-cvl 11 (8-18)/0.82 (0.5-1) 23 (12-49)/0.42 (0.2-0.79) 20 (11-33)/0.5 (0.3-0.92) 21 (12-47)/0.45 (0.21-0.77) 8 (5-11)/1 (0.73-1) LASSO-pcvl 11 (8-18)/0.82 (0.5-1) 11 (8-17)/0.83 (0.53-1) 11 (8-18)/0.82 (0.5-1) 7 (5-10)/1 (0.86-1) Elastic Net 22 (13-35)/0.46 (0.29-0.85) 24 (13-49)/0.41 (0.2-0.71) 8 (5-13)/1 (0.69-1) BSS Enet 20 (12-32)/0.47 (0.28-0.83) 8 (5-12)/1 (0.73-1) CoxBoost 8 (5-12)/1 (0.7-1) 50 2/3 LASSO-cvl 46 (31-59)/0.8 (0.62-0.97) 80 (58-111)/0.52 (0.39-0.72) 58 (46-70)/0.69 (0.59-0.85) 68 (43-87)/0.59 (0.45-0.84) 16 (12-21)/0.94 (0.76-1) LASSO-pcvl 46 (31-59)/0.8 (0.62-0.97) 44 (30-54)/0.83 (0.69-0.97) 46 (31-58)/0.8 (0.65-0.97) 14 (9-20)/1 (0.84-1) Elastic Net 62 (51-78)/0.68 (0.59-0.84) 69 (43-89)/0.59 (0.44-0.84) 17 (14-23)/0.94 (0.74-1) BSS Enet 55 (40-67)/0.71 (0.6-0.87) 16 (12-22)/0.94 (0.81-1) CoxBoost 15 (12-21)/0.94 (0.8-1) 1000 12 2/3 LASSO-cvl 15 (9-25)/0.62 (0.4-1) 42 (20-74)/0.24 (0.12-0.5) 33 (19-55)/0.29 (0.16-0.53) 37 (14-67)/0.25 (0.15-0.57) 7 (3-9)/1 (0.83-1) LASSO-pcvl 15 (9-25)/0.62 (0.4-1) 14 (9-25)/0.62 (0.4-1) 14 (9-25)/0.62 (0.4-1) 6 (3-9)/1 (0.8-1) Elastic Net 38 (21-59)/0.28 (0.18-0.52) 41 (14-70)/0.23 (0.14-0.57) 7 (4-10)/1 (0.83-1) BSS Enet 35 (14-53)/0.28 (0.17-0.57) 7 (4-10)/1 (0.75-1) CoxBoost 7 (4-9)/1 (0.83-1) 50 2/3 LASSO-cvl 57 (45-73)/0.76 (0.6-0.91) 100 (75-144)/0.45 (0.31-0.59) 73 (59-89)/0.61 (0.5-0.74) 78 (53-110)/0.56 (0.39-0.77) 15 (11-18)/1 (0.88-1) LASSO-pcvl 57 (46-73)/0.75 (0.6-0.91) 55 (45-68)/0.79 (0.63-0.91) 55 (45-71)/0.76 (0.61-0.91) 15 (11-18)/1 (0.92-1) Elastic Net 78 (65-93)/0.59 (0.5-0.72) 79 (53-112)/0.55 (0.38-0.77) 16 (12-18)/1 (0.81-1) BSS Enet 67 (53-82)/0.66 (0.53-0.83) 15 (11-18)/1 (0.92-1) CoxBoost 15 (11-18)/1 (0.92-1)