α1 α2 β1 β2 β2 σ0 σ1
Sample size 20            
true value 0 0 50 30000 1 1 500
naive model 0.0213 (0.0517) -0.0063 (0.0117) 78.13 (22.56) 29958.77 (31.48) 1.0022 (0.0014) 0.9809 (0.0053) 463.61 (1.34)
integrated model 0.015 (0.052) -0.0062 (0.0117) 142.07 (15.3) 29881.73 (28.8) 1.0077 (0.0014) 0.9298 (0.0051) 490.89 (1.24)
true value 0 -0.1 50 30000 1 1 500
naive model -0.0062 (0.0057) -0.1066 (0.0117) 78.43 (22.69) 29954.12 (31.17) 1.0023 (0.0014) 0.981 (0.0053) 463.75 (1.34)
integrated model -0.0106 (0.0068) -0.1067 (0.0117) 136.82 (15.25) 29875.35 (28.62) 1.0078 (0.0014) 0.9299 (0.005) 490.51 (1.23)
true value 0 -0.3 50 30000 1 1 500
naive model -0.0015 (0.0057) -0.3067 (0.0117) 83.04 (23.4) 29904.9 (31.25) 1.0044 (0.0014) 0.9811 (0.0053) 464.85 (1.38)
integrated model -0.0126 (0.0068) -0.3071 (0.0117) 168.89 (15.35) 29827.69 (29.14) 1.0102 (0.0014) 0.93 (0.0051) 491.49 (1.23)
true value 0 -0.5 50 30000 1 1 500
naive model -0.0015 (0.0057) -0.5063 (0.0117) 81.23 (22.74) 29909.99 (30.21) 1.0045 (0.0014) 0.9807 (0.0053) 464.58 (1.36)
integrated model -0.0119 (0.0068) -0.5069 (0.0117) 161.52 (14.84) 29838.19 (28.02) 1.0096 (0.0014) 0.9297 (0.0051) 491.18 (1.23)
true value 0 -1 50 30000 1 1 500
naive model -0.0043 (0.0061) -1.0021 (0.0117) 23.03 (20.93) 30048.43 (26.41) 0.9997 (0.0012) 0.9795 (0.0053) 465.42 (1.4)
integrated model -0.0105 (0.0068) -1.005 (0.0117) 91.21 (13.22) 29964.21 (24.28) 1.003 (0.0012) 0.9298 (0.0051) 491.06 (1.27)
true value 0 -1.3 50 30000 1 1 500
naive model -0.0055 (0.006) -1.3033 (0.0117) 39.67 (18.69) 30027.79 (24.25) 1.0018 (0.0012) 0.9792 (0.0053) 465.7 (1.37)
integrated model -0.0099 (0.0067) -1.3077 (0.0118) 96.34 (11.97) 29952.63 (22.46) 1.0035 (0.0011) 0.9301 (0.005) 491.25 (1.25)
true value 0 -1.5 50 30000 1 1 500
naive model -0.0096 (0.0063) -1.5032 (0.0117) 83.81 (17.38) 29973.69 (22.32) 1.0042 (0.0011) 0.9789 (0.0053) 464.47 (1.35)
integrated model -0.0111 (0.0069) -1.5086 (0.0117) 124.24 (11.18) 29909.02 (20.75) 1.0054 (0.0011) 0.93 (0.0051) 491.11 (1.28)
Sample size 50            
true value 0 0 50 30000 1 1 500
naive model -0.023 (0.0283) 0.0054 (0.0064) -11.3 (16.58) 30137.24 (20.17) 0.9952 (9e-04) 0.9923 (0.0032) 457.55 (0.85)
integrated model -0.0259 (0.0284) 0.0053 (0.0064) 43.36 (9.77) 30057.24 (18.46) 0.9982 (9e-04) 0.9719 (0.0032) 495.97 (0.79)
true value 0 -0.1 50 30000 1 1 500
naive model -0.0012 (0.0041) -0.0946 (0.0064) -6.46 (16.12) 30141.23 (19.69) 0.9951 (9e-04) 0.9925 (0.0032) 457.14 (0.84)
integrated model -0.0026 (0.0043) -0.0947 (0.0064) 39.43 (9.46) 30061.21 (18.05) 0.9982 (8e-04) 0.972 (0.0032) 495.79 (0.79)
true value 0 -0.3 50 30000 1 1 500
naive model 0.0021 (0.0041) -0.2942 (0.0064) -14.38 (15.88) 30131.06 (18.59) 0.9954 (8e-04) 0.9923 (0.0032) 458.04 (0.86)
integrated model -9e-04 (0.0044) -0.2945 (0.0064) 36.9 (8.99) 30053.19 (17.01) 0.9983 (8e-04) 0.9719 (0.0032) 496.54 (0.78)
true value 0 -0.5 50 30000 1 1 500
naive model 0.0031 (0.004) -0.4939 (0.0064) -10.89 (15.49) 30113.24 (17.77) 0.9965 (8e-04) 0.9919 (0.0032) 457 (0.84)
integrated model -0.002 (0.0044) -0.4946 (0.0064) 46.42 (8.56) 30042.02 (16.43) 0.9988 (8e-04) 0.9716 (0.0032) 496.05 (0.79)
true value 0 -1 50 30000 1 1 500
naive model -0.0031 (0.0042) -0.9927 (0.0064) 16.45 (13.86) 30112.04 (16.06) 0.998 (8e-04) 0.9915 (0.0032) 457.22 (0.82)
integrated model -0.0022 (0.0044) -0.9948 (0.0064) 46.61 (7.86) 30043.54 (14.75) 0.9986 (7e-04) 0.9719 (0.0032) 496.19 (0.79)
true value 0 -1.3 50 30000 1 1 500
naive model -0.0068 (0.0043) -1.2911 (0.0064) 48.01 (13.45) 30080.17 (14.29) 1.0002 (7e-04) 0.9911 (0.0032) 457.21 (0.82)
integrated model -0.0018 (0.0044) -1.2949 (0.0064) 60.83 (7.18) 30013.75 (13.47) 0.9997 (7e-04) 0.9721 (0.0032) 496.15 (0.79)
true value 0 -1.5 50 30000 1 1 500
naive model -0.0078 (0.0041) -1.4898 (0.0064) 77.09 (11.46) 30027.67 (13.43) 1.0032 (7e-04) 0.9909 (0.0032) 456.69 (0.78)
integrated model -0.0026 (0.0043) -1.4944 (0.0064) 82.21 (6.6) 29975.26 (12.74) 1.0017 (7e-04) 0.972 (0.0032) 496.5 (0.77)
Sample size 100            
true value 0 0 50 30000 1 1 500
naive model 0.0124 (0.0207) -0.0032 (0.0047) -21.78 (12.82) 30189.17 (14.32) 0.9927 (6e-04) 0.997 (0.0022) 455.17 (0.62)
integrated model 0.0143 (0.0208) -0.0033 (0.0047) 7.17 (6.74) 30116.73 (12.96) 0.9951 (6e-04) 0.9863 (0.0022) 498.45 (0.57)
true value 0 -0.1 50 30000 1 1 500
naive model 0.0029 (0.0032) -0.1028 (0.0047) -46.45 (12.49) 30192.3 (13.75) 0.9929 (6e-04) 0.9965 (0.0022) 454.27 (0.6)
integrated model -5e-04 (0.0032) -0.1029 (0.0047) 1.55 (6.47) 30125.41 (12.4) 0.9948 (6e-04) 0.9859 (0.0022) 498.08 (0.56)
true value 0 -0.3 50 30000 1 1 500
naive model 3e-04 (0.0033) -0.3033 (0.0047) -26.94 (12.46) 30177.98 (13.77) 0.9932 (6e-04) 0.9968 (0.0022) 455.26 (0.6)
integrated model -9e-04 (0.0032) -0.3036 (0.0047) 11.3 (6.47) 30110.92 (12.44) 0.9951 (6e-04) 0.9861 (0.0022) 498.77 (0.56)
true value 0 -0.5 50 30000 1 1 500
naive model 0.0034 (0.0033) -0.5024 (0.0047) -29.46 (12.41) 30152.94 (12.87) 0.9948 (6e-04) 0.9968 (0.0022) 454.68 (0.59)
integrated model -0.002 (0.0032) -0.5029 (0.0047) 23.79 (6.41) 30091.34 (11.81) 0.996 (6e-04) 0.9863 (0.0022) 498.68 (0.56)
true value 0 -1 50 30000 1 1 500
naive model -0.0063 (0.0033) -1.0002 (0.0047) 18.58 (10.56) 30140.4 (11.11) 0.9961 (5e-04) 0.9965 (0.0022) 454.05 (0.58)
integrated model -0.0024 (0.0032) -1.0018 (0.0047) 31.28 (5.38) 30081.86 (10.35) 0.9964 (5e-04) 0.9864 (0.0022) 498.21 (0.57)
true value 0 -1.3 50 30000 1 1 500
naive model -0.0072 (0.0033) -1.3008 (0.0047) 47.51 (9.63) 30088.26 (9.9) 0.9992 (5e-04) 0.9967 (0.0022) 453.78 (0.59)
integrated model -0.0024 (0.0032) -1.3036 (0.0047) 52.33 (4.87) 30038.92 (9.46) 0.9982 (5e-04) 0.9871 (0.0022) 498.32 (0.59)
true value 0 -1.5 50 30000 1 1 500
naive model -0.0066 (0.0032) -1.5001 (0.0047) 65.64 (8.32) 30046.58 (8.83) 1.0018 (4e-04) 0.996 (0.0022) 452.58 (0.56)
integrated model -8e-04 (0.0032) -1.5037 (0.0047) 62.17 (4.51) 30006.08 (8.55) 0.9998 (4e-04) 0.9864 (0.0022) 498.25 (0.58)
Sample size 300            
true value 0 0 50 30000 1 1 500
naive model -0.0029 (0.0118) -7e-04 (0.0027) -7.69 (8.36) 30141.18 (8.44) 0.9945 (4e-04) 0.9998 (0.0014) 451.18 (0.34)
integrated model -0.0039 (0.0118) -7e-04 (0.0027) 17.74 (3.87) 30099.42 (7.63) 0.9956 (4e-04) 0.9953 (0.0014) 499.45 (0.32)
true value 0 -0.1 50 30000 1 1 500
naive model 3e-04 (0.0023) -0.1009 (0.0026) -45.21 (8.74) 30156.77 (7.84) 0.9938 (4e-04) 0.9999 (0.0014) 451.88 (0.34)
integrated model -0.0084 (0.002) -0.1009 (0.0026) 11.41 (3.65) 30117.72 (7.15) 0.9947 (3e-04) 0.9955 (0.0014) 500 (0.32)
true value 0 -0.3 50 30000 1 1 500
naive model -0.0038 (0.0024) -0.3005 (0.0027) -19.8 (8.81) 30144.6 (8.1) 0.9945 (4e-04) 0.9996 (0.0014) 451.86 (0.35)
integrated model -0.0069 (0.0019) -0.3006 (0.0027) 14.95 (3.71) 30101.39 (7.38) 0.9955 (4e-04) 0.9953 (0.0014) 499.85 (0.31)
true value 0 -0.5 50 30000 1 1 500
naive model -0.0041 (0.0023) -0.5006 (0.0026) -16.25 (8.32) 30142.07 (7.35) 0.9948 (3e-04) 0.9996 (0.0014) 451.4 (0.33)
integrated model -0.0085 (0.0019) -0.5009 (0.0026) 22.01 (3.48) 30102.75 (6.82) 0.9954 (3e-04) 0.9953 (0.0014) 499.8 (0.32)
true value 0 -1 50 30000 1 1 500
naive model -0.0121 (0.0023) -0.999 (0.0027) 30.28 (7.06) 30107.97 (6.46) 0.9968 (3e-04) 0.9996 (0.0014) 451 (0.33)
integrated model -0.0082 (0.002) -0.9999 (0.0027) 32.49 (3.08) 30070.72 (6.22) 0.9967 (3e-04) 0.9955 (0.0014) 499.92 (0.33)
true value 0 -1.3 50 30000 1 1 500
naive model -0.0101 (0.0021) -1.2999 (0.0028) 47.45 (5.33) 30058.55 (5.39) 0.9997 (3e-04) 1.0019 (0.0027) 448.96 (0.31)
integrated model -0.0077 (0.002) -1.3008 (0.0028) 49.28 (2.79) 30036.58 (5.22) 0.9983 (3e-04) 0.9955 (0.0014) 499.31 (0.34)
true value 0 -1.5 50 30000 1 1 500
naive model -0.0106 (0.0021) -1.4962 (0.0027) 47.23 (4.56) 30059.42 (5.23) 1.0004 (3e-04) 0.9997 (0.0015) 450.03 (1.52)
integrated model -0.0091 (0.0021) -1.4986 (0.0028) 49.02 (2.61) 30043.6 (5.15) 0.9979 (3e-04) 0.9955 (0.0014) 499.52 (0.35)
Table 1: Table for the detailed point estimates of all unknown parameters and their standard error;Sample size was from 20 to 300 and the protein intensity located in the middle part of sigmoidal curve; the integrated model had a similar performance as the naïve model.