StAM Report: Prediction of Hyperdip>50 (predictive) - beta 0.193, 0.807



Information on Evaluation

Total number of samples: 327
Training samples: 218 ( 42 from Hyperdip>50, 176 from other )
Test samples: 109 ( 22 from Hyperdip>50, 87 from other )
Focus on class: Hyperdip>50
Data frm chip: hgu95av2
Start node: GO:0008150 ( biological_process )


Annotation Information

Chip annotations for: hgu95av2
Chip data package: data package version 1.5.1
Mon May 10 11:12:58 2004
GO data package: GO package version 1.5.1
Mon May 10 11:46:39 2004
Root node chosen: GO:0008150 ( biological_process )
Number of probesets
on the chip:
12625
Probesets annotated
below GO:0008150 :
8679
Number of nodes
with direct annotations:
1359
Total number of nodes: 2204


Information on Cross Validation

Number of samples: 218
Number of classes: 2
Class weights: 'Hyperdip>50': 0.193 'other': 0.807
Class prior: 'Hyperdip>50':0.193 'other':0.807
Shrinkage candidates: 0, 0.033, 0.066, 0.098, 0.131, 0.164, 0.197, 0.23, 0.262, 0.295, 0.328, 0.361, 0.393, 0.426, 0.459, 0.492, 0.525, 0.557, 0.59, 0.623, 0.656, 0.689, 0.721, 0.754, 0.787, 0.82, 0.853, 0.885, 0.918, 0.951


Cross validated performance


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 Root.error.rateRoot.performanceMean.redundancyNodesGenes
00.068810.745761.1854922038359
0.0330.068810.739641.1858222038359
0.0660.068810.731921.1862422038359
0.0980.082570.721891.1865622028257
0.1310.082570.708361.1873222028257
0.1640.082570.689261.1884322028257
0.1970.082570.660841.1902422028257
0.230.082570.616681.1937222028257
0.2620.077980.544711.492194607354
0.2950.077980.54071.498084577354
0.3280.077980.53561.521084407349
0.3610.082570.526911.548464167028
0.3930.082570.51571.592613856951
0.4260.082570.506481.642073436873
0.4590.082570.498331.688053176824
0.4920.082570.487931.714933016766
0.5250.082570.475451.769352716595
0.5570.082570.465811.818922376199
0.590.082570.454271.859221995718
0.6230.082570.439181.953961665425
0.6560.077980.425262.051181314519
0.6890.082570.404192.130741003356
0.7210.077980.38242.08615842834
0.7540.064220.359142.29819431880
0.7870.059630.348872.02122381834
0.820.050460.337322.23511271683
0.8530.055050.304872.0189116859
0.8850.027520.292932.597258153
0.9180.022940.287822.616478153


Information on Model Fit


Fit for D = 0.9181

Number of classes: 2
Class weights: 'Hyperdip>50': 0.193 'other': 0.807
Class prior: 'Hyperdip>50':0.193 'other':0.807
Chosen shrinkage level: 0.918
(by optimizing the root's error rate )
Number of nodes left 8
Number of accessible genes 153

Shrunken prediction graph

Hover over a node to see its description, click on it to view its detailed results.


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Nodewise evaluation


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Information on Predictions

Number of samples: 327 (64 from Hyperdip>50, 263 from other)
Test samples: 109 (22 from Hyperdip>50, 87 from other)
Classes: Hyperdip>50, other


Illustration of Performance on testdata

Nodewise evaluation


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Prediction image

Hover over a node description to see its ID, click on it to see detailed results.


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Details on Nodes


GO:0008150

biological_process

Biological
Process

Parent node

8 child nodes

Performance on training data

 SensitivitySpecificity
Hyperdip>500.76190.99432
other0.994320.7619

Performance on test data

 SensitivitySpecificity
Hyperdip>500.590911
other10.59091

Predictions

 ClassHyperdip>50otherPredictionn
BCR-ABL-1other0.043850.95615 other
BCR-ABL-2other0.004430.99557 other
BCR-ABL-3other0.076590.92341 other
BCR-ABL-4other0.012890.98711 other
BCR-ABL-5other0.00910.9909 other
BCR-ABL-6other0.012410.98759 other
BCR-ABL-7other0.016790.98321 other
BCR-ABL-8other0.010980.98902 other
BCR-ABL-9 (testset)other0.01990.9801 other
BCR-ABL-C1 (testset)other0.056580.94342 other
BCR-ABL-Hyperdip-10other0.475580.52442 other
BCR-ABL-Hyperdip-R5other0.786590.21341 Hyperdip>50
BCR-ABL-R1 (testset)other0.0140.986 other
BCR-ABL-R2other0.030460.96954 other
BCR-ABL-R3other0.00610.9939 other
E2A-PBX1-10other0.009480.99052 other
E2A-PBX1-11other0.020150.97985 other
E2A-PBX1-12other0.096750.90325 other
E2A-PBX1-13other0.042920.95708 other
E2A-PBX1-1other0.014150.98585 other
E2A-PBX1-2 (testset)other0.004760.99524 other
E2A-PBX1-3 (testset)other0.026240.97376 other
E2A-PBX1-4other0.023940.97606 other
E2A-PBX1-5other0.012750.98725 other
E2A-PBX1-6other0.04720.9528 other
E2A-PBX1-7other0.014380.98562 other
E2A-PBX1-8other0.009270.99073 other
E2A-PBX1-9other0.008180.99182 other
E2A-PBX1-2M1other0.023310.97669 other
E2A-PBX1-C10other0.009220.99078 other
E2A-PBX1-C11other0.028250.97175 other
E2A-PBX1-C12other0.014030.98597 other
E2A-PBX1-C1other0.070640.92936 other
E2A-PBX1-C2 (testset)other0.05110.9489 other
E2A-PBX1-C3other0.063060.93694 other
E2A-PBX1-C4other0.141240.85876 other
E2A-PBX1-C5 (testset)other0.147440.85256 other
E2A-PBX1-C6other0.032220.96778 other
E2A-PBX1-C7other0.039550.96045 other
E2A-PBX1-C8other0.010750.98925 other
E2A-PBX1-C9other0.089240.91076 other
E2A-PBX1-R1other0.065490.93451 other
Hyperdip-50-10Hyperdip>500.71330.2867 Hyperdip>50
Hyperdip-50-11Hyperdip>500.322360.67764 other
Hyperdip-50-12Hyperdip>500.73640.2636 Hyperdip>50
Hyperdip-50-13Hyperdip>500.785620.21438 Hyperdip>50
Hyperdip-50-14 (testset)Hyperdip>500.936890.06311 Hyperdip>50
Hyperdip-50-1Hyperdip>500.582150.41785 Hyperdip>50
Hyperdip-50-2Hyperdip>500.939470.06053 Hyperdip>50
Hyperdip-50-3Hyperdip>500.938140.06186 Hyperdip>50
Hyperdip-50-4Hyperdip>500.037660.96234 other
Hyperdip-50-5Hyperdip>500.873390.12661 Hyperdip>50
Hyperdip-50-6Hyperdip>500.946850.05315 Hyperdip>50
Hyperdip-50-7Hyperdip>500.32080.6792 other
Hyperdip-50-8Hyperdip>500.870570.12943 Hyperdip>50
Hyperdip-50-9 (testset)Hyperdip>500.520390.47961 Hyperdip>50
Hyperdip-50-2M1Hyperdip>500.828210.17179 Hyperdip>50
Hyperdip-50-2M2Hyperdip>500.935350.06465 Hyperdip>50
Hyperdip-50-C10 (testset)Hyperdip>500.382510.61749 other
Hyperdip-50-C11Hyperdip>500.75980.2402 Hyperdip>50
Hyperdip-50-C12Hyperdip>500.228540.77146 other
Hyperdip-50-C13Hyperdip>500.881180.11882 Hyperdip>50
Hyperdip-50-C14Hyperdip>500.621070.37893 Hyperdip>50
Hyperdip-50-C15 (testset)Hyperdip>500.488470.51153 other
Hyperdip-50-C16 (testset)Hyperdip>500.574580.42542 Hyperdip>50
Hyperdip-50-C17Hyperdip>500.277020.72298 other
Hyperdip-50-C18 (testset)Hyperdip>500.677910.32209 Hyperdip>50
Hyperdip-50-C19 (testset)Hyperdip>500.047720.95228 other
Hyperdip-50-C1Hyperdip>500.411090.58891 other
Hyperdip-50-C20Hyperdip>500.333610.66639 other
Hyperdip-50-C21Hyperdip>500.987470.01253 Hyperdip>50
Hyperdip-50-C22 (testset)Hyperdip>500.944890.05511 Hyperdip>50
Hyperdip-50-C23Hyperdip>500.594180.40582 Hyperdip>50
Hyperdip-50-C24Hyperdip>500.966830.03317 Hyperdip>50
Hyperdip-50-C25 (testset)Hyperdip>500.962730.03727 Hyperdip>50
Hyperdip-50-C26Hyperdip>500.809170.19083 Hyperdip>50
Hyperdip-50-C27-N (testset)Hyperdip>500.029940.97006 other
Hyperdip-50-C28Hyperdip>500.888570.11143 Hyperdip>50
Hyperdip-50-C29Hyperdip>500.088880.91112 other
Hyperdip-50-C2Hyperdip>500.816110.18389 Hyperdip>50
Hyperdip-50-C30Hyperdip>500.609170.39083 Hyperdip>50
Hyperdip-50-C31Hyperdip>500.680140.31986 Hyperdip>50
Hyperdip-50-C32 (testset)Hyperdip>500.883610.11639 Hyperdip>50
Hyperdip-50-C33Hyperdip>500.509880.49012 Hyperdip>50
Hyperdip-50-C34Hyperdip>500.917860.08214 Hyperdip>50
Hyperdip-50-C35 (testset)Hyperdip>500.619420.38058 Hyperdip>50
Hyperdip-50-C36Hyperdip>500.909930.09007 Hyperdip>50
Hyperdip-50-C37Hyperdip>500.600150.39985 Hyperdip>50
Hyperdip-50-C38Hyperdip>500.865310.13469 Hyperdip>50
Hyperdip-50-C39 (testset)Hyperdip>500.835650.16435 Hyperdip>50
Hyperdip-50-C3 (testset)Hyperdip>500.875370.12463 Hyperdip>50
Hyperdip-50-C40Hyperdip>500.872060.12794 Hyperdip>50
Hyperdip-50-C41Hyperdip>500.947970.05203 Hyperdip>50
Hyperdip-50-C42Hyperdip>500.907860.09214 Hyperdip>50
Hyperdip-50-C43 (testset)Hyperdip>500.072840.92716 other
Hyperdip-50-C4 (testset)Hyperdip>500.930980.06902 Hyperdip>50
Hyperdip-50-C5 (testset)Hyperdip>500.294540.70546 other
Hyperdip-50-C6 (testset)Hyperdip>500.746040.25396 Hyperdip>50
Hyperdip-50-C7 (testset)Hyperdip>500.156810.84319 other
Hyperdip-50-C8Hyperdip>500.420630.57937 other
Hyperdip-50-C9 (testset)Hyperdip>500.921880.07812 Hyperdip>50
Hyperdip-50-R1Hyperdip>500.804290.19571 Hyperdip>50
Hyperdip-50-R2 (testset)Hyperdip>500.452130.54787 other
Hyperdip-50-R3Hyperdip>500.484940.51506 other
Hyperdip-50-R4Hyperdip>500.636550.36345 Hyperdip>50
Hyperdip-50-R5 (testset)Hyperdip>500.485880.51412 other
Hyperdip47-50-1other0.068920.93108 other
Hyperdip47-50-2other0.152540.84746 other
Hyperdip47-50-3other0.011860.98814 other
Hyperdip47-50-2M1other0.132060.86794 other
Hyperdip47-50-C10 (testset)other0.019280.98072 other
Hyperdip47-50-C11other0.082260.91774 other
Hyperdip47-50-C12other0.132210.86779 other
Hyperdip47-50-C13other0.011660.98834 other
Hyperdip47-50-C14-Nother0.005080.99492 other
Hyperdip47-50-C15other0.083620.91638 other
Hyperdip47-50-C16 (testset)other0.026290.97371 other
Hyperdip47-50-C17other0.026410.97359 other
Hyperdip47-50-C18 (testset)other0.213290.78671 other
Hyperdip47-50-C19 (testset)other0.012780.98722 other
Hyperdip47-50-C1other0.012380.98762 other
Hyperdip47-50-C2 (testset)other0.025990.97401 other
Hyperdip47-50-C3-N (testset)other0.011830.98817 other
Hyperdip47-50-C4 (testset)other0.055640.94436 other
Hyperdip47-50-C5other0.081650.91835 other
Hyperdip47-50-C6 (testset)other0.083370.91663 other
Hyperdip47-50-C7 (testset)other0.015280.98472 other
Hyperdip47-50-C8other0.048930.95107 other
Hyperdip47-50-C9other0.154720.84528 other
Hypodip-1other0.023960.97604 other
Hypodip-2other0.05370.9463 other
Hypodip-2M1other0.040330.95967 other
Hypodip-C1 (testset)other0.019890.98011 other
Hypodip-C2other0.118540.88146 other
Hypodip-C3other0.051970.94803 other
Hypodip-C4other0.034130.96587 other
Hypodip-C5 (testset)other0.032140.96786 other
Hypodip-C6other0.03580.9642 other
MLL-1 (testset)other0.026920.97308 other
MLL-2 (testset)other0.020280.97972 other
MLL-3other0.044750.95525 other
MLL-4other0.036150.96385 other
MLL-5other0.017110.98289 other
MLL-6other0.028960.97104 other
MLL-7other0.012130.98787 other
MLL-8other0.041340.95866 other
MLL-2M1other0.046940.95306 other
MLL-2M2other0.03640.9636 other
MLL-C1 (testset)other0.060410.93959 other
MLL-C2other0.061590.93841 other
MLL-C3other0.030280.96972 other
MLL-C4other0.020630.97937 other
MLL-C5other0.025120.97488 other
MLL-C6 (testset)other0.016120.98388 other
MLL-R1other0.01940.9806 other
MLL-R2other0.104020.89598 other
MLL-R3 (testset)other0.049040.95096 other
MLL-R4 (testset)other0.009430.99057 other
Normal-1other0.065880.93412 other
Normal-2other0.013460.98654 other
Normal-3other0.032590.96741 other
Normal-C1-Nother0.060180.93982 other
Normal-C10other0.018540.98146 other
Normal-C11-N (testset)other0.028350.97165 other
Normal-C12 (testset)other0.024230.97577 other
Normal-C2-Nother0.060550.93945 other
Normal-C3-Nother0.052660.94734 other
Normal-C4-Nother0.035510.96449 other
Normal-C5other0.021130.97887 other
Normal-C6other0.00650.9935 other
Normal-C7-Nother0.036280.96372 other
Normal-C8 (testset)other0.031820.96818 other
Normal-C9 (testset)other0.02940.9706 other
Normal-R1other0.055850.94415 other
Normal-R2-Nother0.01520.9848 other
Normal-R3other0.010830.98917 other
Pseudodip-1other0.006330.99367 other
Pseudodip-2other0.121490.87851 other
Pseudodip-3 (testset)other0.004490.99551 other
Pseudodip-4other0.016820.98318 other
Pseudodip-5 (testset)other0.015850.98415 other
Pseudodip-6 (testset)other0.024520.97548 other
Pseudodip-7other0.008280.99172 other
Pseudodip-8-N (testset)other0.004750.99525 other
Pseudodip-9 (testset)other0.008150.99185 other
Pseudodip-C10other0.040660.95934 other
Pseudodip-C11other0.030950.96905 other
Pseudodip-C12other0.080160.91984 other
Pseudodip-C13 (testset)other0.006250.99375 other
Pseudodip-C14other0.008180.99182 other
Pseudodip-C15other0.016410.98359 other
Pseudodip-C16-Nother0.024480.97552 other
Pseudodip-C17other0.020880.97912 other
Pseudodip-C18other0.013670.98633 other
Pseudodip-C19 (testset)other0.028130.97187 other
Pseudodip-C1other0.130130.86987 other
Pseudodip-C2-Nother0.01590.9841 other
Pseudodip-C3other0.147260.85274 other
Pseudodip-C4other0.450390.54961 other
Pseudodip-C5other0.019460.98054 other
Pseudodip-C6other0.016090.98391 other
Pseudodip-C7 (testset)other0.036620.96338 other
Pseudodip-C8other0.029780.97022 other
Pseudodip-C9other0.01240.9876 other
Pseudodip-R1-N (testset)other0.092030.90797 other
T-ALL-10 (testset)other0.007480.99252 other
T-ALL-1 (testset)other0.019920.98008 other
T-ALL-2other0.022130.97787 other
T-ALL-3 (testset)other0.0060.994 other
T-ALL-4 (testset)other0.038480.96152 other
T-ALL-5other0.011840.98816 other
T-ALL-6 (testset)other0.014140.98586 other
T-ALL-7 (testset)other0.002240.99776 other
T-ALL-8other0.01710.9829 other
T-ALL-9 (testset)other0.015980.98402 other
T-ALL-2M1other0.012520.98748 other
T-ALL-C10other0.037590.96241 other
T-ALL-C11other0.015780.98422 other
T-ALL-C12 (testset)other0.008220.99178 other
T-ALL-C13 (testset)other0.024740.97526 other
T-ALL-C14 (testset)other0.01420.9858 other
T-ALL-C15other0.013570.98643 other
T-ALL-C16 (testset)other0.066230.93377 other
T-ALL-C17 (testset)other0.047220.95278 other
T-ALL-C18 (testset)other0.069510.93049 other
T-ALL-C19other0.067060.93294 other
T-ALL-C1 (testset)other0.005820.99418 other
T-ALL-C20 (testset)other0.034250.96575 other
T-ALL-C21 (testset)other0.015710.98429 other
T-ALL-C22other0.011570.98843 other
T-ALL-C23 (testset)other0.0130.987 other
T-ALL-C24other0.032720.96728 other
T-ALL-C25other0.011040.98896 other
T-ALL-C26other0.019990.98001 other
T-ALL-C2 (testset)other0.014870.98513 other
T-ALL-C3other0.011190.98881 other
T-ALL-C4other0.004520.99548 other
T-ALL-C5 (testset)other0.037510.96249 other
T-ALL-C6 (testset)other0.002650.99735 other
T-ALL-C7other0.00960.9904 other
T-ALL-C8 (testset)other0.042420.95758 other
T-ALL-C9 (testset)other0.044980.95502 other
T-ALL-R1other0.043590.95641 other
T-ALL-R2other0.002790.99721 other
T-ALL-R3other0.028440.97156 other
T-ALL-R4other0.011580.98842 other
T-ALL-R5 (testset)other0.04130.9587 other
T-ALL-R6other0.017460.98254 other
TEL-AML1-10other0.030.97 other
TEL-AML1-11 (testset)other0.016730.98327 other
TEL-AML1-12other0.061660.93834 other
TEL-AML1-13other0.047950.95205 other
TEL-AML1-14 (testset)other0.015740.98426 other
TEL-AML1-1 (testset)other0.13390.8661 other
TEL-AML1-2other0.01270.9873 other
TEL-AML1-3 (testset)other0.020490.97951 other
TEL-AML1-4 (testset)other0.018140.98186 other
TEL-AML1-5other0.033210.96679 other
TEL-AML1-6other0.027220.97278 other
TEL-AML1-7 (testset)other0.033680.96632 other
TEL-AML1-8other0.02380.9762 other
TEL-AML1-9other0.033260.96674 other
TEL-AML1-2M1other0.00980.9902 other
TEL-AML1-2M2other0.030490.96951 other
TEL-AML1-2M3 (testset)other0.047490.95251 other
TEL-AML1-2M4 (testset)other0.058910.94109 other
TEL-AML1-2M5other0.011330.98867 other
TEL-AML1-C10 (testset)other0.018850.98115 other
TEL-AML1-C11other0.020310.97969 other
TEL-AML1-C12 (testset)other0.021790.97821 other
TEL-AML1-C13other0.024040.97596 other
TEL-AML1-C14 (testset)other0.017860.98214 other
TEL-AML1-C15other0.083120.91688 other
TEL-AML1-C16other0.011340.98866 other
TEL-AML1-C17other0.060830.93917 other
TEL-AML1-C18other0.024640.97536 other
TEL-AML1-C19other0.121060.87894 other
TEL-AML1-C1other0.038050.96195 other
TEL-AML1-C20 (testset)other0.017110.98289 other
TEL-AML1-C21other0.01870.9813 other
TEL-AML1-C22 (testset)other0.199140.80086 other
TEL-AML1-C23other0.020790.97921 other
TEL-AML1-C24other0.006270.99373 other
TEL-AML1-C25other0.039870.96013 other
TEL-AML1-C26other0.015330.98467 other
TEL-AML1-C27other0.029960.97004 other
TEL-AML1-C28 (testset)other0.009080.99092 other
TEL-AML1-C29other0.07230.9277 other
TEL-AML1-C2 (testset)other0.038870.96113 other
TEL-AML1-C30other0.024720.97528 other
TEL-AML1-C31other0.033520.96648 other
TEL-AML1-C32other0.035770.96423 other
TEL-AML1-C33other0.021590.97841 other
TEL-AML1-C34other0.012350.98765 other
TEL-AML1-C35other0.012010.98799 other
TEL-AML1-C36other0.034140.96586 other
TEL-AML1-C37 (testset)other0.018290.98171 other
TEL-AML1-C38other0.032040.96796 other
TEL-AML1-C39other0.022780.97722 other
TEL-AML1-C3 (testset)other0.014130.98587 other
TEL-AML1-C40 (testset)other0.004960.99504 other
TEL-AML1-C41other0.068670.93133 other
TEL-AML1-C42 (testset)other0.045320.95468 other
TEL-AML1-C43 (testset)other0.068580.93142 other
TEL-AML1-C44other0.047350.95265 other
TEL-AML1-C45 (testset)other0.049090.95091 other
TEL-AML1-C46other0.070890.92911 other
TEL-AML1-C47 (testset)other0.024030.97597 other
TEL-AML1-C48other0.012610.98739 other
TEL-AML1-C49other0.033590.96641 other
TEL-AML1-C4other0.005610.99439 other
TEL-AML1-C50other0.07620.9238 other
TEL-AML1-C51other0.056880.94312 other
TEL-AML1-C52 (testset)other0.021810.97819 other
TEL-AML1-C53other0.062210.93779 other
TEL-AML1-C54other0.059130.94087 other
TEL-AML1-C55 (testset)other0.051770.94823 other
TEL-AML1-C56other0.086250.91375 other
TEL-AML1-C57 (testset)other0.120870.87913 other
TEL-AML1-C5other0.03640.9636 other
TEL-AML1-C6other0.024910.97509 other
TEL-AML1-C7 (testset)other0.016340.98366 other
TEL-AML1-C8other0.072810.92719 other
TEL-AML1-C9other0.032240.96776 other
TEL-AML1-R1other0.036550.96345 other
TEL-AML1-R2other0.022140.97786 other
TEL-AML1-R3 (testset)other0.067570.93243 other

 


Generated by StAM on Tue Sep 7 18:27:53 2004