Predictive test for aggressiveness or indolence of prostate cancer from mass spectrometry of blood-based sample
A programmed computer functioning as a classifier operates on mass spectral data obtained from a blood-based patient sample to predict indolence or aggressiveness of prostate cancer. Methods of generating the classifier and conducting a test on a blood-based sample from a prostate cancer patient using the classifier are described.
1. A system for prostate cancer aggressiveness or indolence prediction, comprising:
a computer system including a memory storing a final classifier in memory defined from one or more master classifiers generated by conducting logistic regression with extreme drop-out on a multitude of mini-classifiers which meet predefined filtering criteria, wherein the mini-classifiers execute a K-nearest neighbor classification algorithm on a set of features selected from the list of features set forth below
Left m/z
Center m/z
Right m/z
3081.583
3090.249
3098.915
3308.621
3329.648
3350.675
4145.045
4160.911
4176.776
4177.923
4197.23
4216.536
4446.822
4468.04
4489.258
4556.927
4572.41
4587.894
4694.939
4717.304
4739.669
4772.094
4790.636
4809.178
4809.56
4824.661
4839.762
4846.644
4860.598
4874.552
4880.493
4896.55
4912.607
5053.678
5071.264
5088.85
5090.762
5109.303
5127.845
5279.182
5292.874
5306.565
6376.924
6430.949
6484.973
6576.342
6590.984
6605.625
6606.408
6652.759
6699.111
6782.803
6797.117
6811.43
6822.441
6835.653
6848.866
6849.6
6859.632
6869.663
6870.397
6891.073
6911.748
6928.141
6946.736
6965.332
7018.671
7055.25
7091.829
7370.816
7387.447
7404.077
7405.224
7419.56
7433.897
7514.946
7556.617
7598.289
7658.311
7681.058
7703.805
7893.703
7945.124
7996.544
7999.22
8034.583
8069.947
8181.751
8209.468
8237.185
8551.43
8562.293
8573.157
8574.723
8589.795
8604.867
8666.721
8691.776
8716.831
8730.019
8759.869
8789.72
8792.411
8818.347
8844.283
8859.941
8870.798
8881.656
8883.796
8923.25
8962.704
9043.529
9067.232
9090.935
9092.465
9154.245
9216.026
9265.334
9282.308
9299.283
9324.362
9346.077
9367.792
9368.098
9381.861
9395.624
9398.071
9433.855
9469.639
9471.168
9487.836
9504.505
9617.762
9641.159
9664.556
9690.553
9717.467
9744.382
9777.537
9793.747
9809.957
9902.628
9935.506
9968.385
10325.87
10347.13
10368.38
10430.11
10453.51
10476.9
11502.59
11525.29
11547.99
11642.19
11673.55
11704.91
11709.09
11730.3
11751.51
12525.06
12571.66
12618.25
12808.63
12864.18
12919.74
13676.71
13706.17
13735.63
13737.77
13758.42
13779.07
13781.02
13797.76
13814.5
13825.46
13839.55
13853.64
13855.09
13877.11
13899.13
13899.72
13913.81
13927.91
13928.52
13939.29
13950.05
13958.08
13970.19
13982.3
14026.12
14041.39
14056.66
14056.69
14066.96
14077.23
14612.46
14676.26
14740.06
15010.07
15126.44
15242.8
15269.09
15291.55
15314.01
15315.44
15345.55
15375.65
15724.22
15852.06
15979.89
16008.09
16031.26
16054.44
16056.83
16093.15
16129.47
16605.01
16682.66
16760.32
17091.97
17138.56
17185.16
17223.02
17266.27
17309.52
17333.41
17393.86
17454.31
17563.93
17601.92
17639.91
18598.12
18640.3
18682.49
21007.96
21074.42
21140.87
21949.42
22238.76
22528.1
27742.59
27978.55
28214.5
28227.94
28314.56
28401.17
28793.87
28909.23
29024.6
29572.29
29667.12
29761.95
3153.208
3164.868
3176.529
3353.837
3372.531
3391.224
3419.727
3442.492
3465.257
3473.03
3490.798
3508.566
4055.23
4068.741
4082.252
4137.036
4153.693
4170.351
4170.721
4190.155
4209.588
4698.8
4712.168
4725.537
4759.221
4802.16
4845.099
4983.911
5008.526
5033.142
5053.501
5069.418
5085.336
5090.443
5104.695
5118.946
5121.167
5133.938
5146.708
5525.044
5570.204
5615.365
5843.444
5879.72
5915.996
5978.924
6000.949
6022.974
6366.989
6387.348
6407.707
6409.047
6457.28
6505.514
6518.615
6532
6545.385
6623.863
6631.566
6639.268
6566.766
6632.507
6698.248
6785.31
6794.313
6803.315
6826.591
6838.081
6849.57
6850.447
6859.449
6868.452
6870.181
6882.263
6894.346
6916.615
6940.779
6964.943
7459.185
7488.68
7518.175
7526.229
7562.357
7598.486
7601.624
7617.379
7633.133
7657.771
7674.354
7690.938
7887.538
7929.737
7971.936
7976.674
7990.148
8003.622
8005.695
8033.827
8061.96
8188.822
8205.257
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8226.727
8238.276
8249.825
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8717.985
8726.499
8759.074
8791.648
8797.941
8827.554
8857.167
8887.061
8931.11
8975.16
9041.789
9061.223
9080.657
9084.787
9147.53
9210.273
9281.714
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9325.024
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9400.788
9437.805
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9623.278
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9725.363
9727.954
9747.388
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9917.122
9933.965
9950.807
10045.12
10073.81
10102.5
10130.62
10227.42
10324.21
10326.06
10342.54
10359.01
10409.79
10460.69
10511.59
10610.05
10649.29
10688.53
10778.11
10838.26
10898.41
11501.77
11535.78
11569.79
11653.08
11680.38
11707.67
11713.23
11736.36
11759.5
12524.61
12570.59
12616.58
12768.69
12848.51
12928.32
13256.1
13278.08
13300.06
13490.6
13556.3
13622.01
13660.37
13699.01
13737.65
13740.89
13760.09
13779.29
13781.6
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13807.98
13825.56
13840.37
13855.17
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13901.91
13915.09
13928.28
13928.74
13942.62
13956.51
13960.21
13979.18
13998.15
14020.82
14048.12
14075.42
14078.2
14103.42
14128.63
14130.48
14156.63
14182.77
14339.49
14402.65
14465.81
14830.89
14885.25
14939.62
14941.47
14989.6
15037.72
15039.57
15067.33
15095.09
15096.02
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15214.01
15270.23
15291.74
15313.26
15314.65
15346.57
15378.5
15705.12
15736.59
15768.05
15769.44
15801.13
15832.83
15833.76
15867.07
15900.39
15901.31
15925.14
15948.97
15951.75
15981.59
16011.43
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16034.34
16054.47
16055.85
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16148
16170.78
16175.11
16204.76
16234.4
16600.22
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16732.53
17222.34
17246.92
17271.5
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17377.42
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17417.91
17437.79
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17901.41
17950.21
18594.98
18622.82
18650.65
18652.82
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18701.98
20902.69
20954.66
21006.62
21011.14
21064.46
21117.78
23258.31
23571.9
23885.49
27660.21
27839.26
28018.31
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28177.59
28227.29
28315.97
28404.65
28815.5
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3073.625
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3380.2
3391.946
3403.692
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6399.965
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7406.3
7419.793
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7904.954
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8022.717
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8218.23
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8380.133
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8464.072
8470.723
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8477.558
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8520.011
8520.544
8531.198
8541.852
8554.723
8564.761
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8618.77
8631.702
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8660.554
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8736.456
8736.518
8745.817
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8770.604
8784.861
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8796.962
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9615.006
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10091.61
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10102.24
10112.77
10120.09
10135.29
10150.49
10150.78
10162.62
10174.45
10174.65
10185.23
10195.82
10195.91
10210.35
10224.78
10225.16
10236.04
10246.91
10250.09
10263.03
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10285.11
10293.68
10295
10313.15
10331.3
10333.03
10346.26
10359.49
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10365.85
10372
10408.98
10420.87
10432.75
10436.76
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10705.55
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11057.93
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11425.13
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11469.96
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11532.05
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11613
11627.24
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11688.44
11710.15
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11733.43
11754.78
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11786.66
11817.09
11817.93
11834.77
11851.61
11868.93
11898.52
11928.11
11928.7
11944.87
11961.05
12143.52
12158.28
12173.04
12271.47
12290.85
12310.22
12400.43
12412.62
12424.81
12433.83
12457.39
12480.94
12489.93
12507.27
12524.61
12536.4
12565.8
12595.2
12597.2
12613.41
12629.61
12647.98
12674.21
12700.44
12716.47
12738.02
12759.57
12761.24
12785.79
12810.35
12829.73
12873.16
12916.59
12935.63
12967.54
12999.44
13051.23
13080.96
13110.69
13117.71
13134.41
13151.12
13225.86
13241.27
13256.68
13258.69
13274.73
13290.77
13304.99
13318.16
13331.32
13347.56
13364.6
13381.64
13402.57
13413.92
13425.28
13510.26
13524.96
13539.66
13551.35
13567.72
13584.09
13597.13
13624.17
13651.21
13703.7
13721.07
13738.44
13740.45
13762.16
13783.88
13784.55
13798.24
13811.94
13826.64
13842.84
13859.05
13864.06
13882.93
13901.81
13903.15
13916.01
13928.87
13929.87
13943.07
13956.27
13958.61
13983.66
14008.72
14015.73
14042.8
14069.86
14076.2
14097.59
14118.97
14124.31
14149.03
14173.76
14178.77
14198.98
14219.19
14231.55
14254.61
14277.66
14281.33
14306.56
14331.78
14461.45
14515
14568.55
14751.73
14784.47
14817.21
14857.63
14884.53
14911.42
14949.73
14975.44
15001.15
15009.14
15028.79
15048.44
15527.48
15563.22
15598.97
15713.63
15753.95
15794.27
16465.93
16502.17
16538.42
16610.92
16630.13
16649.34
16999.46
17032.54
17065.61
17104.03
17148.13
17192.23
17225.64
17270.91
17316.18
17318.65
17335.6
17352.55
17359.48
17401.7
17443.93
17445.13
17476.37
17507.61
17569.08
17604.33
17639.57
17774.54
17815.47
17856.39
17982.34
18031.12
18079.9
18232.58
18275.34
18318.1
18593.72
18636.99
18680.25
18816.22
18850.13
18884.04
19339.07
19373.15
19407.22
19407.56
19463.85
19520.15
19522.82
19575.27
19627.72
20740.85
20811.99
20883.14
20886.89
20945.69
21004.49
21005.16
21061.95
21118.75
21119.42
21170.37
21221.31
21221.98
21275.44
21328.89
21330.89
21377.17
21423.44
21428.09
21475.32
21522.55
21642.26
21687.7
21733.13
21733.61
21755.74
21777.87
21778.15
21807.79
21837.44
21837.72
21862.69
21887.65
21887.93
21917.15
21946.37
22967.23
23036.05
23104.87
23110.29
23160.86
23211.44
23212.98
23256.28
23299.59
23407.68
23468.85
23530.03
27630.18
27715.9
27801.62
27874.33
27944.17
28014.01
28015.03
28082.32
28149.61,
a set of mass spectrometry feature values for a constitutive set for classification, the set of mass spectrometry feature values obtained from blood-based samples of prostate cancer patients, a classification algorithm and a set of logistic regression weighting coefficients derived from a combination of filtered mini-classifiers with dropout regularization;
the computer system including program code for executing the final classifier on a set of mass spectrometry feature values obtained from mass spectrometry of a blood-based sample of a human with prostate cancer.
2. The computer system of claim 1 , wherein non-mass spectral information for each prostate cancer patient whose blood-based samples are in the constitutive set is stored in the memory, including at least one of age, PSA and % fPSA.
3. The computer system of claim 1 , wherein each prostate cancer patient whose sample is a member of the constitutive set supplied the sample after diagnosis with prostate cancer but before radical prostatectomy (RPE).
4. The computer system of claim 1 , wherein each prostate cancer patient whose sample is a member of the constitutive set has a Total Gleason Score of 6 or lower at the time the blood-based sample from such patient was obtained.
5. A laboratory test system for conducting a test on a blood-based sample from a prostate cancer patient to predict aggressiveness or indolence of the prostate cancer comprising, in combination:
a mass spectrometer conducting mass spectrometry of the blood-based sample with a mass spectrometer and thereby obtaining mass spectral data including intensity values at a multitude of m/z features in a spectrum produced by the mass spectrometer; and
a programmed computer including code for performing pre-processing operations on the mass spectral data and classifying the sample with a final classifier defined by one or more master classifiers generated as a combination of filtered mini-classifiers with regularization, the final classifier operating on the intensity values of the sample after the pre-processing operations are performed and a set of stored values of m/z features from a constitutive set of mass spectra obtained from blood-based samples of prostate cancer patients, wherein the m/z features are selected from the list of features comprising those shown below:
Left m/z
Center m/z
Right m/z
3081.583
3090.249
3098.915
3308.621
3329.648
3350.675
4145.045
4160.911
4176.776
4177.923
4197.23
4216.536
4446.822
4468.04
4489.258
4556.927
4572.41
4587.894
4694.939
4717.304
4739.669
4772.094
4790.636
4809.178
4809.56
4824.661
4839.762
4846.644
4860.598
4874.552
4880.493
4896.55
4912.607
5053.678
5071.264
5088.85
5090.762
5109.303
5127.845
5279.182
5292.874
5306.565
6376.924
6430.949
6484.973
6576.342
6590.984
6605.625
6606.408
6652.759
6699.111
6782.803
6797.117
6811.43
6822.441
6835.653
6848.866
6849.6
6859.632
6869.663
6870.397
6891.073
6911.748
6928.141
6946.736
6965.332
7018.671
7055.25
7091.829
7370.816
7387.447
7404.077
7405.224
7419.56
7433.897
7514.946
7556.617
7598.289
7658.311
7681.058
7703.805
7893.703
7945.124
7996.544
7999.22
8034.583
8069.947
8181.751
8209.468
8237.185
8551.43
8562.293
8573.157
8574.723
8589.795
8604.867
8666.721
8691.776
8716.831
8730.019
8759.869
8789.72
8792.411
8818.347
8844.283
8859.941
8870.798
8881.656
8883.796
8923.25
8962.704
9043.529
9067.232
9090.935
9092.465
9154.245
9216.026
9265.334
9282.308
9299.283
9324.362
9346.077
9367.792
9368.098
9381.861
9395.624
9398.071
9433.855
9469.639
9471.168
9487.836
9504.505
9617.762
9641.159
9664.556
9690.553
9717.467
9744.382
9777.537
9793.747
9809.957
9902.628
9935.506
9968.385
10325.87
10347.13
10368.38
10430.11
10453.51
10476.9
11502.59
11525.29
11547.99
11642.19
11673.55
11704.91
11709.09
11730.3
11751.51
12525.06
12571.66
12618.25
12808.63
12864.18
12919.74
13676.71
13706.17
13735.63
13737.77
13758.42
13779.07
13781.02
13797.76
13814.5
13825.46
13839.55
13853.64
13855.09
13877.11
13899.13
13899.72
13913.81
13927.91
13928.52
13939.29
13950.05
13958.08
13970.19
13982.3
14026.12
14041.39
14056.66
14056.69
14066.96
14077.23
14612.46
14676.26
14740.06
15010.07
15126.44
15242.8
15269.09
15291.55
15314.01
15315.44
15345.55
15375.65
15724.22
15852.06
15979.89
16008.09
16031.26
16054.44
16056.83
16093.15
16129.47
16605.01
16682.66
16760.32
17091.97
17138.56
17185.16
17223.02
17266.27
17309.52
17333.41
17393.86
17454.31
17563.93
17601.92
17639.91
18598.12
18640.3
18682.49
21007.96
21074.42
21140.87
21949.42
22238.76
22528.1
27742.59
27978.55
28214.5
28227.94
28314.56
28401.17
28793.87
28909.23
29024.6
29572.29
29667.12
29761.95
3153.208
3164.868
3176.529
3353.837
3372.531
3391.224
3419.727
3442.492
3465.257
3473.03
3490.798
3508.566
4055.23
4068.741
4082.252
4137.036
4153.693
4170.351
4170.721
4190.155
4209.588
4698.8
4712.168
4725.537
4759.221
4802.16
4845.099
4983.911
5008.526
5033.142
5053.501
5069.418
5085.336
5090.443
5104.695
5118.946
5121.167
5133.938
5146.708
5525.044
5570.204
5615.365
5843.444
5879.72
5915.996
5978.924
6000.949
6022.974
6366.989
6387.348
6407.707
6409.047
6457.28
6505.514
6518.615
6532
6545.385
6623.863
6631.566
6639.268
6566.766
6632.507
6698.248
6785.31
6794.313
6803.315
6826.591
6838.081
6849.57
6850.447
6859.449
6868.452
6870.181
6882.263
6894.346
6916.615
6940.779
6964.943
7459.185
7488.68
7518.175
7526.229
7562.357
7598.486
7601.624
7617.379
7633.133
7657.771
7674.354
7690.938
7887.538
7929.737
7971.936
7976.674
7990.148
8003.622
8005.695
8033.827
8061.96
8188.822
8205.257
8221.693
8226.727
8238.276
8249.825
8651.726
8684.856
8717.985
8726.499
8759.074
8791.648
8797.941
8827.554
8857.167
8887.061
8931.11
8975.16
9041.789
9061.223
9080.657
9084.787
9147.53
9210.273
9281.714
9303.369
9325.024
9329.466
9346.308
9363.151
9366.482
9382.584
9398.686
9400.788
9437.805
9474.821
9623.278
9643.606
9663.934
9693.159
9709.261
9725.363
9727.954
9747.388
9766.821
9917.122
9933.965
9950.807
10045.12
10073.81
10102.5
10130.62
10227.42
10324.21
10326.06
10342.54
10359.01
10409.79
10460.69
10511.59
10610.05
10649.29
10688.53
10778.11
10838.26
10898.41
11501.77
11535.78
11569.79
11653.08
11680.38
11707.67
11713.23
11736.36
11759.5
12524.61
12570.59
12616.58
12768.69
12848.51
12928.32
13256.1
13278.08
13300.06
13490.6
13556.3
13622.01
13660.37
13699.01
13737.65
13740.89
13760.09
13779.29
13781.6
13794.79
13807.98
13825.56
13840.37
13855.17
13857.95
13878.31
13898.67
13901.91
13915.09
13928.28
13928.74
13942.62
13956.51
13960.21
13979.18
13998.15
14020.82
14048.12
14075.42
14078.2
14103.42
14128.63
14130.48
14156.63
14182.77
14339.49
14402.65
14465.81
14830.89
14885.25
14939.62
14941.47
14989.6
15037.72
15039.57
15067.33
15095.09
15096.02
15155.01
15214.01
15270.23
15291.74
15313.26
15314.65
15346.57
15378.5
15705.12
15736.59
15768.05
15769.44
15801.13
15832.83
15833.76
15867.07
15900.39
15901.31
15925.14
15948.97
15951.75
15981.59
16011.43
16014.21
16034.34
16054.47
16055.85
16088.94
16122.02
16125.23
16148
16170.78
16175.11
16204.76
16234.4
16600.22
16666.38
16732.53
17222.34
17246.92
17271.5
17272.23
17288.13
17304.04
17358.26
17377.42
17396.58
17398.03
17417.91
17437.79
17852.61
17901.41
17950.21
18594.98
18622.82
18650.65
18652.82
18677.4
18701.98
20902.69
20954.66
21006.62
21011.14
21064.46
21117.78
23258.31
23571.9
23885.49
27660.21
27839.26
28018.31
28019.44
28098.51
28177.59
28227.29
28315.97
28404.65
28815.5
28888.93
28962.36
3073.625
3085.665
3097.705
3098.586
3109.891
3121.197
3123.546
3138.669
3153.793
3190.793
3210.615
3230.436
3230.73
3242.623
3254.516
3255.103
3264.647
3274.191
3296.802
3316.77
3336.739
3349.072
3363.608
3378.144
3380.2
3391.946
3403.692
3405.16
3420.283
3435.407
3435.7
3445.097
3454.494
3454.788
3465.359
3475.931
3490.725
3508.305
3525.884
3531.431
3553.896
3576.36
3581.059
3593.099
3605.138
3665.631
3679.286
3692.941
3693.94
3712.036
3730.132
3745.211
3754.755
3764.299
3764.592
3775.604
3786.616
3798.592
3814.263
3829.933
3831.545
3841.53
3851.514
3876.474
3887.486
3898.499
3898.583
3906.18
3913.777
3914.356
3928.158
3941.959
3942.253
3953.412
3964.571
3994.23
4008.619
4023.008
4024.182
4031.67
4039.159
4039.452
4050.464
4061.476
4086.437
4098.77
4111.104
4111.308
4118.525
4125.742
4126.043
4133.109
4140.176
4198.812
4209.788
4220.764
4241.573
4249.445
4257.316
4258.28
4265.83
4273.38
4273.837
4286.166
4298.495
4328.264
4340.217
4352.17
4352.32
4360.815
4369.31
4369.611
4380.962
4392.314
4393.817
4408.627
4423.436
4424.789
4431.179
4437.569
4437.87
4459.22
4480.57
4496.507
4506.58
4516.654
4552.738
4564.991
4577.245
4577.384
4592.602
4607.819
4616.938
4625.282
4633.627
4633.927
4643.324
4652.721
4664.148
4675.274
4686.4
4690.609
4717.673
4744.736
4746.54
4756.162
4765.785
4766.386
4773.152
4779.918
4780.218
4791.194
4802.17
4802.621
4817.881
4833.142
4836.299
4855.995
4875.691
4880.953
4891.177
4901.401
4909.52
4918.316
4927.111
4927.261
4937.636
4948.01
4948.16
4963.045
4977.93
4987.552
4998.979
5010.405
5011.007
5020.103
5029.199
5029.65
5041.077
5052.504
5053.556
5067.839
5082.123
5087.535
5104.074
5120.613
5121.383
5134.355
5147.326
5149.837
5156.322
5162.808
5164.9
5181.637
5198.375
5209.77
5223.753
5237.736
5238.036
5247.734
5257.432
5275.624
5289.757
5303.89
5347.191
5358.543
5369.894
5370.646
5377.186
5383.726
5383.877
5389.815
5395.754
5395.905
5403.422
5410.94
5411.09
5416.277
5421.464
5421.615
5429.809
5438.003
5439.807
5449.204
5458.601
5463.713
5472.057
5480.402
5481.454
5495.813
5510.171
5510.472
5521.222
5531.972
5535.439
5557.829
5580.219
5663.828
5675.387
5686.946
5696.097
5709.823
5723.549
5740.923
5748.044
5755.165
5756.127
5762.381
5768.636
5769.502
5776.671
5783.84
5787.496
5795.483
5803.469
5803.95
5815.979
5828.007
5828.68
5842.055
5855.431
5856.297
5867.218
5878.14
5879.39
5889.157
5898.924
5899.02
5910.808
5922.595
5924.106
5934.47
5944.834
5946.068
5961.861
5977.654
5978.694
5997.458
6016.222
6016.895
6026.806
6036.717
6052.178
6074.758
6097.337
6099.552
6108.597
6117.642
6161.136
6170.373
6179.611
6184.807
6192.938
6201.069
6201.261
6209.585
6217.908
6218.004
6226.039
6234.074
6245.993
6254.58
6263.166
6273.718
6283.244
6292.771
6292.867
6301.238
6309.61
6321.927
6331.742
6341.556
6349.371
6357.324
6365.277
6379.18
6386.108
6393.037
6393.229
6399.965
6406.7
6408.625
6437.829
6467.033
6467.129
6485.171
6503.214
6520.161
6531.72
6543.279
6548.095
6556.042
6563.989
6577.691
6589.431
6601.17
6603.961
6611.61
6619.26
6620.319
6634.319
6648.32
6648.512
6657.076
6665.64
6668.623
6680.651
6692.68
6700.438
6707.101
6713.764
6719.237
6731.65
6744.063
6744.599
6755.677
6766.754
6767.638
6773.171
6778.704
6786.982
6792.762
6798.542
6799.97
6808.919
6817.868
6824.892
6836.679
6848.467
6848.948
6859.629
6870.31
6873.797
6881.433
6889.07
6890.609
6897.599
6904.589
6914.565
6921.586
6928.606
6933.102
6941.477
6949.853
6950.469
6956.75
6963.032
6963.34
6970.545
6977.75
6978.92
6992.222
7005.524
7014.269
7022.06
7029.85
7029.912
7034.592
7039.272
7039.395
7045.154
7050.912
7067.293
7073.79
7080.287
7119.824
7147.228
7174.633
7177.589
7188.951
7200.314
7232.783
7257.933
7283.084
7292.812
7300.633
7308.454
7316.187
7321.946
7327.705
7327.772
7333.817
7339.863
7339.896
7346.093
7352.29
7352.819
7360.754
7368.688
7379.768
7393.009
7406.249
7406.3
7419.793
7433.287
7433.608
7447.584
7461.56
7463.692
7479.362
7495.032
7497.824
7510.356
7522.889
7731.041
7738.801
7746.561
7761.341
7779.077
7796.813
7808.996
7828.02
7847.044
7849.362
7871.424
7893.485
7904.954
7912.836
7920.719
8007.424
8015.07
8022.717
8134.028
8157.158
8180.287
8195.752
8206.991
8218.23
8238.737
8253.917
8269.098
8304.472
8328.669
8352.866
8353.406
8363.536
8373.667
8380.133
8391.495
8402.857
8404.767
8413.388
8422.01
8422.133
8430.231
8438.33
8457.421
8464.072
8470.723
8470.846
8477.558
8484.271
8497.292
8508.651
8520.011
8520.544
8531.198
8541.852
8554.723
8564.761
8574.799
8575.476
8585.268
8595.06
8618.77
8631.702
8644.635
8649.87
8660.554
8671.239
8671.855
8696.119
8720.383
8720.568
8728.512
8736.456
8736.518
8745.817
8755.116
8756.348
8770.604
8784.861
8791.574
8796.962
8802.351
8802.474
8822.181
8841.887
8861.964
8871.848
8881.732
8883.826
8890.538
8897.251
8897.436
8901.654
8905.873
8905.934
8928.258
8950.582
8967.272
8974.415
8981.559
8988.149
8997.971
9007.794
9010.011
9020.295
9030.58
9030.764
9038.216
9045.668
9055.367
9062.134
9068.902
9069.184
9079.194
9089.205
9091.547
9097.798
9104.049
9115.171
9134.336
9153.501
9196.082
9206.437
9216.792
9217.991
9226.317
9234.643
9234.742
9244.546
9254.35
9254.941
9263.932
9272.924
9273.256
9291.73
9310.203
9310.761
9318.865
9326.969
9344.962
9359.289
9373.615
9387.662
9395.293
9402.923
9410.817
9430.014
9449.211
9475.524
9484.41
9493.296
9494.536
9504.042
9513.549
9520.898
9534.803
9548.707
9559.484
9576.179
9592.874
9615.006
9641.179
9667.352
9689.387
9720.901
9752.414
9784.265
9793.021
9801.777
9840.895
9862.594
9884.294
9908.49
9918.931
9929.371
9929.66
9941.495
9953.331
10002.41
10012.36
10022.32
10066.88
10079.24
10091.61
10091.7
10102.24
10112.77
10120.09
10135.29
10150.49
10150.78
10162.62
10174.45
10174.65
10185.23
10195.82
10195.91
10210.35
10224.78
10225.16
10236.04
10246.91
10250.09
10263.03
10275.97
10276.55
10285.11
10293.68
10295
10313.15
10331.3
10333.03
10346.26
10359.49
10359.69
10365.85
10372
10408.98
10420.87
10432.75
10436.76
10448.55
10460.34
10472.41
10480.21
10488.01
10488.32
10503.84
10519.36
10521.66
10532.67
10543.68
10543.99
10551.18
10558.36
10573.66
10589.18
10604.71
10615.84
10636.81
10657.79
10705.55
10734.07
10762.59
10773.07
10782.59
10792.12
10792.19
10804.96
10817.72
10827.72
10846.77
10865.83
10912.98
10923.56
10934.15
10954.02
10965.58
10977.14
11035.47
11057.93
11080.38
11092.07
11107.19
11122.31
11137.08
11149.06
11161.04
11288.09
11306.44
11324.78
11357.26
11375.9
11394.54
11396.27
11410.09
11423.9
11425.13
11447.54
11469.96
11505.19
11532.05
11558.92
11613
11627.24
11641.47
11642.18
11654.28
11666.38
11666.74
11688.44
11710.15
11712.08
11733.43
11754.78
11756.23
11786.66
11817.09
11817.93
11834.77
11851.61
11868.93
11898.52
11928.11
11928.7
11944.87
11961.05
12143.52
12158.28
12173.04
12271.47
12290.85
12310.22
12400.43
12412.62
12424.81
12433.83
12457.39
12480.94
12489.93
12507.27
12524.61
12536.4
12565.8
12595.2
12597.2
12613.41
12629.61
12647.98
12674.21
12700.44
12716.47
12738.02
12759.57
12761.24
12785.79
12810.35
12829.73
12873.16
12916.59
12935.63
12967.54
12999.44
13051.23
13080.96
13110.69
13117.71
13134.41
13151.12
13225.86
13241.27
13256.68
13258.69
13274.73
13290.77
13304.99
13318.16
13331.32
13347.56
13364.6
13381.64
13402.57
13413.92
13425.28
13510.26
13524.96
13539.66
13551.35
13567.72
13584.09
13597.13
13624.17
13651.21
13703.7
13721.07
13738.44
13740.45
13762.16
13783.88
13784.55
13798.24
13811.94
13826.64
13842.84
13859.05
13864.06
13882.93
13901.81
13903.15
13916.01
13928.87
13929.87
13943.07
13956.27
13958.61
13983.66
14008.72
14015.73
14042.8
14069.86
14076.2
14097.59
14118.97
14124.31
14149.03
14173.76
14178.77
14198.98
14219.19
14231.55
14254.61
14277.66
14281.33
14306.56
14331.78
14461.45
14515
14568.55
14751.73
14784.47
14817.21
14857.63
14884.53
14911.42
14949.73
14975.44
15001.15
15009.14
15028.79
15048.44
15527.48
15563.22
15598.97
15713.63
15753.95
15794.27
16465.93
16502.17
16538.42
16610.92
16630.13
16649.34
16999.46
17032.54
17065.61
17104.03
17148.13
17192.23
17225.64
17270.91
17316.18
17318.65
17335.6
17352.55
17359.48
17401.7
17443.93
17445.13
17476.37
17507.61
17569.08
17604.33
17639.57
17774.54
17815.47
17856.39
17982.34
18031.12
18079.9
18232.58
18275.34
18318.1
18593.72
18636.99
18680.25
18816.22
18850.13
18884.04
19339.07
19373.15
19407.22
19407.56
19463.85
19520.15
19522.82
19575.27
19627.72
20740.85
20811.99
20883.14
20886.89
20945.69
21004.49
21005.16
21061.95
21118.75
21119.42
21170.37
21221.31
21221.98
21275.44
21328.89
21330.89
21377.17
21423.44
21428.09
21475.32
21522.55
21642.26
21687.7
21733.13
21733.61
21755.74
21777.87
21778.15
21807.79
21837.44
21837.72
21862.69
21887.65
21887.93
21917.15
21946.37
22967.23
23036.05
23104.87
23110.29
23160.86
23211.44
23212.98
23256.28
23299.59
23407.68
23468.85
23530.03
27630.18
27715.9
27801.62
27874.33
27944.17
28014.01
28015.03
28082.32
28149.61;
the programmed computer producing a class label for the blood-based sample of High, Early or the equivalent signifying the patient is at high risk of early progression/relapse of the prostate cancer indicating aggressiveness of the prostate cancer, or Low, Late or the equivalent, signifying that the patient is at low risk of early progression/relapse of the prostate cancer indicating indolence of the cancer.
6. The system of claim 5 , wherein the mass spectrum of the blood-based sample is obtained from at least 100,000 laser shots applied to the blood-based sample using MALDI-TOF mass spectrometry.
7. A programmed computer operating as a classifier for predicting prostate cancer aggressiveness or indolence, comprising a processing unit and a memory storing a final classifier in the form of a set of feature values for a set of mass spectrometry features forming a constitutive set of mass spectra obtained from blood-based samples of prostate cancer patients, and a final classifier defined as a majority vote or average probability cutoff, of a multitude of master classifiers constructed from a combination of mini-classifiers with dropout regularization, wherein the mini-classifiers execute a K-nearest neighbor classification algorithm on a set of features selected from the list of features set forth below:
Left m/z
Center m/z
Right m/z
3081.583
3090.249
3098.915
3308.621
3329.648
3350.675
4145.045
4160.911
4176.776
4177.923
4197.23
4216.536
4446.822
4468.04
4489.258
4556.927
4572.41
4587.894
4694.939
4717.304
4739.669
4772.094
4790.636
4809.178
4809.56
4824.661
4839.762
4846.644
4860.598
4874.552
4880.493
4896.55
4912.607
5053.678
5071.264
5088.85
5090.762
5109.303
5127.845
5279.182
5292.874
5306.565
6376.924
6430.949
6484.973
6576.342
6590.984
6605.625
6606.408
6652.759
6699.111
6782.803
6797.117
6811.43
6822.441
6835.653
6848.866
6849.6
6859.632
6869.663
6870.397
6891.073
6911.748
6928.141
6946.736
6965.332
7018.671
7055.25
7091.829
7370.816
7387.447
7404.077
7405.224
7419.56
7433.897
7514.946
7556.617
7598.289
7658.311
7681.058
7703.805
7893.703
7945.124
7996.544
7999.22
8034.583
8069.947
8181.751
8209.468
8237.185
8551.43
8562.293
8573.157
8574.723
8589.795
8604.867
8666.721
8691.776
8716.831
8730.019
8759.869
8789.72
8792.411
8818.347
8844.283
8859.941
8870.798
8881.656
8883.796
8923.25
8962.704
9043.529
9067.232
9090.935
9092.465
9154.245
9216.026
9265.334
9282.308
9299.283
9324.362
9346.077
9367.792
9368.098
9381.861
9395.624
9398.071
9433.855
9469.639
9471.168
9487.836
9504.505
9617.762
9641.159
9664.556
9690.553
9717.467
9744.382
9777.537
9793.747
9809.957
9902.628
9935.506
9968.385
10325.87
10347.13
10368.38
10430.11
10453.51
10476.9
11502.59
11525.29
11547.99
11642.19
11673.55
11704.91
11709.09
11730.3
11751.51
12525.06
12571.66
12618.25
12808.63
12864.18
12919.74
13676.71
13706.17
13735.63
13737.77
13758.42
13779.07
13781.02
13797.76
13814.5
13825.46
13839.55
13853.64
13855.09
13877.11
13899.13
13899.72
13913.81
13927.91
13928.52
13939.29
13950.05
13958.08
13970.19
13982.3
14026.12
14041.39
14056.66
14056.69
14066.96
14077.23
14612.46
14676.26
14740.06
15010.07
15126.44
15242.8
15269.09
15291.55
15314.01
15315.44
15345.55
15375.65
15724.22
15852.06
15979.89
16008.09
16031.26
16054.44
16056.83
16093.15
16129.47
16605.01
16682.66
16760.32
17091.97
17138.56
17185.16
17223.02
17266.27
17309.52
17333.41
17393.86
17454.31
17563.93
17601.92
17639.91
18598.12
18640.3
18682.49
21007.96
21074.42
21140.87
21949.42
22238.76
22528.1
27742.59
27978.55
28214.5
28227.94
28314.56
28401.17
28793.87
28909.23
29024.6
29572.29
29667.12
29761.95
3153.208
3164.868
3176.529
3353.837
3372.531
3391.224
3419.727
3442.492
3465.257
3473.03
3490.798
3508.566
4055.23
4068.741
4082.252
4137.036
4153.693
4170.351
4170.721
4190.155
4209.588
4698.8
4712.168
4725.537
4759.221
4802.16
4845.099
4983.911
5008.526
5033.142
5053.501
5069.418
5085.336
5090.443
5104.695
5118.946
5121.167
5133.938
5146.708
5525.044
5570.204
5615.365
5843.444
5879.72
5915.996
5978.924
6000.949
6022.974
6366.989
6387.348
6407.707
6409.047
6457.28
6505.514
6518.615
6532
6545.385
6623.863
6631.566
6639.268
6566.766
6632.507
6698.248
6785.31
6794.313
6803.315
6826.591
6838.081
6849.57
6850.447
6859.449
6868.452
6870.181
6882.263
6894.346
6916.615
6940.779
6964.943
7459.185
7488.68
7518.175
7526.229
7562.357
7598.486
7601.624
7617.379
7633.133
7657.771
7674.354
7690.938
7887.538
7929.737
7971.936
7976.674
7990.148
8003.622
8005.695
8033.827
8061.96
8188.822
8205.257
8221.693
8226.727
8238.276
8249.825
8651.726
8684.856
8717.985
8726.499
8759.074
8791.648
8797.941
8827.554
8857.167
8887.061
8931.11
8975.16
9041.789
9061.223
9080.657
9084.787
9147.53
9210.273
9281.714
9303.369
9325.024
9329.466
9346.308
9363.151
9366.482
9382.584
9398.686
9400.788
9437.805
9474.821
9623.278
9643.606
9663.934
9693.159
9709.261
9725.363
9727.954
9747.388
9766.821
9917.122
9933.965
9950.807
10045.12
10073.81
10102.5
10130.62
10227.42
10324.21
10326.06
10342.54
10359.01
10409.79
10460.69
10511.59
10610.05
10649.29
10688.53
10778.11
10838.26
10898.41
11501.77
11535.78
11569.79
11653.08
11680.38
11707.67
11713.23
11736.36
11759.5
12524.61
12570.59
12616.58
12768.69
12848.51
12928.32
13256.1
13278.08
13300.06
13490.6
13556.3
13622.01
13660.37
13699.01
13737.65
13740.89
13760.09
13779.29
13781.6
13794.79
13807.98
13825.56
13840.37
13855.17
13857.95
13878.31
13898.67
13901.91
13915.09
13928.28
13928.74
13942.62
13956.51
13960.21
13979.18
13998.15
14020.82
14048.12
14075.42
14078.2
14103.42
14128.63
14130.48
14156.63
14182.77
14339.49
14402.65
14465.81
14830.89
14885.25
14939.62
14941.47
14989.6
15037.72
15039.57
15067.33
15095.09
15096.02
15155.01
15214.01
15270.23
15291.74
15313.26
15314.65
15346.57
15378.5
15705.12
15736.59
15768.05
15769.44
15801.13
15832.83
15833.76
15867.07
15900.39
15901.31
15925.14
15948.97
15951.75
15981.59
16011.43
16014.21
16034.34
16054.47
16055.85
16088.94
16122.02
16125.23
16148
16170.78
16175.11
16204.76
16234.4
16600.22
16666.38
16732.53
17222.34
17246.92
17271.5
17272.23
17288.13
17304.04
17358.26
17377.42
17396.58
17398.03
17417.91
17437.79
17852.61
17901.41
17950.21
18594.98
18622.82
18650.65
18652.82
18677.4
18701.98
20902.69
20954.66
21006.62
21011.14
21064.46
21117.78
23258.31
23571.9
23885.49
27660.21
27839.26
28018.31
28019.44
28098.51
28177.59
28227.29
28315.97
28404.65
28815.5
28888.93
28962.36
3073.625
3085.665
3097.705
3098.586
3109.891
3121.197
3123.546
3138.669
3153.793
3190.793
3210.615
3230.436
3230.73
3242.623
3254.516
3255.103
3264.647
3274.191
3296.802
3316.77
3336.739
3349.072
3363.608
3378.144
3380.2
3391.946
3403.692
3405.16
3420.283
3435.407
3435.7
3445.097
3454.494
3454.788
3465.359
3475.931
3490.725
3508.305
3525.884
3531.431
3553.896
3576.36
3581.059
3593.099
3605.138
3665.631
3679.286
3692.941
3693.94
3712.036
3730.132
3745.211
3754.755
3764.299
3764.592
3775.604
3786.616
3798.592
3814.263
3829.933
3831.545
3841.53
3851.514
3876.474
3887.486
3898.499
3898.583
3906.18
3913.777
3914.356
3928.158
3941.959
3942.253
3953.412
3964.571
3994.23
4008.619
4023.008
4024.182
4031.67
4039.159
4039.452
4050.464
4061.476
4086.437
4098.77
4111.104
4111.308
4118.525
4125.742
4126.043
4133.109
4140.176
4198.812
4209.788
4220.764
4241.573
4249.445
4257.316
4258.28
4265.83
4273.38
4273.837
4286.166
4298.495
4328.264
4340.217
4352.17
4352.32
4360.815
4369.31
4369.611
4380.962
4392.314
4393.817
4408.627
4423.436
4424.789
4431.179
4437.569
4437.87
4459.22
4480.57
4496.507
4506.58
4516.654
4552.738
4564.991
4577.245
4577.384
4592.602
4607.819
4616.938
4625.282
4633.627
4633.927
4643.324
4652.721
4664.148
4675.274
4686.4
4690.609
4717.673
4744.736
4746.54
4756.162
4765.785
4766.386
4773.152
4779.918
4780.218
4791.194
4802.17
4802.621
4817.881
4833.142
4836.299
4855.995
4875.691
4880.953
4891.177
4901.401
4909.52
4918.316
4927.111
4927.261
4937.636
4948.01
4948.16
4963.045
4977.93
4987.552
4998.979
5010.405
5011.007
5020.103
5029.199
5029.65
5041.077
5052.504
5053.556
5067.839
5082.123
5087.535
5104.074
5120.613
5121.383
5134.355
5147.326
5149.837
5156.322
5162.808
5164.9
5181.637
5198.375
5209.77
5223.753
5237.736
5238.036
5247.734
5257.432
5275.624
5289.757
5303.89
5347.191
5358.543
5369.894
5370.646
5377.186
5383.726
5383.877
5389.815
5395.754
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