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| Total number of samples: | 203 |
|---|---|
| Training samples: | 203 ( 21 from SQUAMOUS, 182 from other ) |
| Test samples: | 203 ( 21 from SQUAMOUS, 182 from other ) |
| Focus on class: | SQUAMOUS |
| Data frm chip: | hgu95av2 |
| Start node: | GO:0008150 ( biological_process ) |
| 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 |
| Number of samples: | 203 |
|---|---|
| Number of classes: | 2 |
| Class weights: | 'SQUAMOUS': 0.05 'other': 0.95 |
| Class prior: | 'SQUAMOUS':0.103 'other':0.897 |
| Shrinkage candidates: | 0, 0.034, 0.068, 0.101, 0.135, 0.169, 0.203, 0.236, 0.27, 0.304, 0.338, 0.371, 0.405, 0.439, 0.473, 0.507, 0.54, 0.574, 0.608, 0.642, 0.675, 0.709, 0.743, 0.777, 0.811, 0.844, 0.878, 0.912, 0.946, 0.979 |
| Root.error.rate | Root.performance | Mean.redundancy | Nodes | Genes | |
|---|---|---|---|---|---|
| 0 | 0.01478 | 0.3493 | 1.73457 | 2203 | 8665 |
| 0.034 | 0.01478 | 0.35093 | 1.73466 | 2203 | 8665 |
| 0.068 | 0.01478 | 0.35277 | 1.73476 | 2203 | 8665 |
| 0.101 | 0.01478 | 0.35487 | 1.73488 | 2203 | 8665 |
| 0.135 | 0.01478 | 0.35727 | 1.73501 | 2203 | 8665 |
| 0.169 | 0.01478 | 0.36007 | 1.73516 | 2203 | 8665 |
| 0.203 | 0.01478 | 0.36335 | 1.73533 | 2203 | 8665 |
| 0.236 | 0.01478 | 0.36473 | 1.73552 | 2203 | 8665 |
| 0.27 | 0.01478 | 0.366 | 1.73575 | 2203 | 8665 |
| 0.304 | 0.01478 | 0.36726 | 1.73559 | 2202 | 8416 |
| 0.338 | 0.01478 | 0.36629 | 1.73592 | 2202 | 8416 |
| 0.371 | 0.01478 | 0.36432 | 1.73631 | 2202 | 8416 |
| 0.405 | 0.01478 | 0.3617 | 1.73681 | 2202 | 8416 |
| 0.439 | 0.01478 | 0.35829 | 1.73702 | 2201 | 8403 |
| 0.473 | 0.01478 | 0.35374 | 1.73751 | 2200 | 8378 |
| 0.507 | 0.01478 | 0.34743 | 1.73871 | 2200 | 8378 |
| 0.54 | 0.01478 | 0.33826 | 1.74049 | 2200 | 8378 |
| 0.574 | 0.01478 | 0.32392 | 1.74347 | 2200 | 8378 |
| 0.608 | 0.01478 | 0.29876 | 1.74946 | 2200 | 8378 |
| 0.642 | 0.01478 | 0.24767 | 1.76833 | 2199 | 8361 |
| 0.675 | 0.01478 | 0.21657 | 2.24147 | 659 | 7833 |
| 0.709 | 0.01478 | 0.20183 | 2.27381 | 628 | 7558 |
| 0.743 | 0.01478 | 0.17912 | 2.36606 | 557 | 7402 |
| 0.777 | 0.01478 | 0.16108 | 2.56586 | 397 | 6906 |
| 0.811 | 0.01478 | 0.15015 | 2.80354 | 286 | 6301 |
| 0.844 | 0.0197 | 0.14144 | 3.08135 | 188 | 5490 |
| 0.878 | 0.0197 | 0.13089 | 3.31174 | 127 | 4312 |
| 0.912 | 0.01478 | 0.12473 | 3.36352 | 71 | 2366 |
| 0.946 | 0.02463 | 0.13414 | 3.98584 | 18 | 393 |
| Best Delta | Root Error Rate | Performance | Redundancy | #Nodes | #Genes | |
|---|---|---|---|---|---|---|
| 0 | 0 | 0.0148 | 0.3493 | 1.7346 | 2203 | 8665 |
| 0.1 | 0.6417 | 0.0148 | 0.2477 | 1.7683 | 2199 | 8361 |
| 0.2 | 0.6417 | 0.0148 | 0.2477 | 1.7683 | 2199 | 8361 |
| 0.3 | 0.6417 | 0.0148 | 0.2477 | 1.7683 | 2199 | 8361 |
| 0.4 | 0.6417 | 0.0148 | 0.2477 | 1.7683 | 2199 | 8361 |
| 0.5 | 0.743 | 0.0148 | 0.1791 | 2.3661 | 557 | 7402 |
| 0.6 | 0.7768 | 0.0148 | 0.1611 | 2.5659 | 397 | 6906 |
| 0.7 | 0.7768 | 0.0148 | 0.1611 | 2.5659 | 397 | 6906 |
| 0.8 | 0.9119 | 0.0148 | 0.1247 | 3.3635 | 71 | 2366 |
| 0.9 | 0.9119 | 0.0148 | 0.1247 | 3.3635 | 71 | 2366 |
| 1 | 0.9119 | 0.0148 | 0.1247 | 3.3635 | 71 | 2366 |
| Number of classes: | 2 |
|---|---|
| Class weights: | 'SQUAMOUS': 0.05 'other': 0.95 |
| Class prior: | 'SQUAMOUS':0.103 'other':0.897 |
| Chosen shrinkage level: | 0.912 (by accepting the system default (after consulting weighting alternatives) ) |
| Number of nodes left | 71 |
| Number of accessible genes | 2366 |
Hover over a node to see its description, click on it to view its detailed results.
| Number of samples: | 203 (21 from SQUAMOUS, 182 from other) |
|---|---|
| Classes: | SQUAMOUS, other |
Hover over a node description to see its ID, click on it to see detailed results.
GO:0008150 | biological_process | Biological Process |
| GO:0003673 | Gene_Ontology (not in fit) |
|---|
| ID | Term | Weight |
|---|---|---|
| GO:0007610 | behavior | 0.00000 |
| GO:0000004 | biological_process unknown | 0.00000 |
| GO:0009987 | cellular process | 0.34134 |
| GO:0007275 | development | 0.36345 |
| GO:0008371 | obsolete biological process | 0.00000 |
| GO:0007582 | physiological process | 0.29521 |
| GO:0050789 | regulation of biological process | 0.00000 |
| GO:0016032 | viral life cycle | 0.00000 |
| Sensitivity | Specificity | |
|---|---|---|
| SQUAMOUS | 0.80952 | 0.98901 |
| other | 0.98901 | 0.80952 |
| Sensitivity | Specificity | |
|---|---|---|
| SQUAMOUS | 0.90476 | 1 |
| other | 1 | 0.90476 |
| Class | SQUAMOUS | other | Predictionn | |
|---|---|---|---|---|
| CL2001031606AA (testset) | SQUAMOUS | 0.6743 | 0.3257 | SQUAMOUS |
| CL2001031607AA (testset) | other | 0.0215 | 0.9785 | other |
| CL2001031608AA (testset) | other | 0.00448 | 0.99552 | other |
| CL2001031609AA (testset) | other | 0.00431 | 0.99569 | other |
| CL2001031611AA (testset) | other | 0.04549 | 0.95451 | other |
| CL2001031612AA (testset) | other | 0.10061 | 0.89939 | other |
| CL2001031613AA (testset) | other | 0.07311 | 0.92689 | other |
| CL2001031615AA (testset) | other | 0.01258 | 0.98742 | other |
| CL2001031616AA (testset) | other | 0.05026 | 0.94974 | other |
| CL2001031618AA (testset) | other | 0.00236 | 0.99764 | other |
| CL2001031620AA (testset) | SQUAMOUS | 0.54146 | 0.45854 | SQUAMOUS |
| CL2001031621AA (testset) | SQUAMOUS | 0.93394 | 0.06606 | SQUAMOUS |
| CL2001031622AA (testset) | other | 0.18796 | 0.81204 | other |
| CL2001031625AA (testset) | other | 0.00265 | 0.99735 | other |
| CL2001031627AA (testset) | other | 0.00865 | 0.99135 | other |
| CL2001031628AA (testset) | other | 0.00493 | 0.99507 | other |
| CL2001031629AA (testset) | other | 0.16451 | 0.83549 | other |
| CL2001031630AA (testset) | other | 0.00171 | 0.99829 | other |
| CL2001031631AA (testset) | other | 0.01367 | 0.98633 | other |
| CL2001031632AA (testset) | other | 0.027 | 0.973 | other |
| CL2001031634AA (testset) | other | 0.00366 | 0.99634 | other |
| CL2001031635AA (testset) | other | 0.00306 | 0.99694 | other |
| CL2001031636AA (testset) | other | 0.05816 | 0.94184 | other |
| CL2001032002AA (testset) | other | 0.00201 | 0.99799 | other |
| CL2001032005AA (testset) | other | 0.00518 | 0.99482 | other |
| CL2001032008AA (testset) | other | 0.10214 | 0.89786 | other |
| CL2001032009AA (testset) | other | 0.00548 | 0.99452 | other |
| CL2001032010AA (testset) | other | 0.00361 | 0.99639 | other |
| CL2001032011AA (testset) | other | 0.01152 | 0.98848 | other |
| CL2001032012AA (testset) | other | 0.00319 | 0.99681 | other |
| CL2001032013AA (testset) | other | 0.00424 | 0.99576 | other |
| CL2001032015AA (testset) | other | 0.01323 | 0.98677 | other |
| CL2001032016AA (testset) | other | 0.00423 | 0.99577 | other |
| CL2001032019AA (testset) | other | 0.01158 | 0.98842 | other |
| CL2001032020AA (testset) | other | 0.01841 | 0.98159 | other |
| CL2001032025AA (testset) | other | 0.00404 | 0.99596 | other |
| CL2001032026AA (testset) | other | 0.00662 | 0.99338 | other |
| CL2001032027AA (testset) | other | 0.04983 | 0.95017 | other |
| CL2001032030AA (testset) | other | 0.04874 | 0.95126 | other |
| CL2001032031AA (testset) | other | 0.0106 | 0.9894 | other |
| CL2001032032AA (testset) | other | 0.00357 | 0.99643 | other |
| CL2001032034AA (testset) | other | 0.01424 | 0.98576 | other |
| CL2001032036AA (testset) | other | 0.13355 | 0.86645 | other |
| CL2001032041AA (testset) | other | 0.01083 | 0.98917 | other |
| CL2001032043AA (testset) | other | 0.0123 | 0.9877 | other |
| CL2001032044AA (testset) | other | 0.00252 | 0.99748 | other |
| CL2001032045AA (testset) | other | 0.01109 | 0.98891 | other |
| CL2001032046AA (testset) | other | 0.00432 | 0.99568 | other |
| CL2001032101AA (testset) | other | 0.00699 | 0.99301 | other |
| CL2001032102AA (testset) | other | 0.01404 | 0.98596 | other |
| CL2001032103AA (testset) | other | 0.0024 | 0.9976 | other |
| CL2001032104AA (testset) | other | 0.01108 | 0.98892 | other |
| CL2001032105AA (testset) | other | 0.00842 | 0.99158 | other |
| CL2001032107AA (testset) | other | 0.00569 | 0.99431 | other |
| CL2001032108AA (testset) | other | 0.00299 | 0.99701 | other |
| CL2001032109AA (testset) | other | 0.00461 | 0.99539 | other |
| CL2001032110AA (testset) | other | 0.0058 | 0.9942 | other |
| CL2001032111AA (testset) | other | 0.00389 | 0.99611 | other |
| CL2001032113AA (testset) | other | 0.00724 | 0.99276 | other |
| CL2001032114AA (testset) | other | 0.00632 | 0.99368 | other |
| CL2001032115AA (testset) | other | 0.00209 | 0.99791 | other |
| CL2001032116AA (testset) | other | 0.00379 | 0.99621 | other |
| CL2001032117AA (testset) | other | 0.02377 | 0.97623 | other |
| CL2001032121AA (testset) | other | 0.02504 | 0.97496 | other |
| CL2001032122AA (testset) | SQUAMOUS | 0.79306 | 0.20694 | SQUAMOUS |
| CL2001032124AA (testset) | other | 0.00931 | 0.99069 | other |
| CL2001032125AA (testset) | other | 0.16246 | 0.83754 | other |
| CL2001032127AA (testset) | other | 0.00346 | 0.99654 | other |
| CL2001032128AA (testset) | other | 0.01156 | 0.98844 | other |
| CL2001032129AA (testset) | SQUAMOUS | 0.94514 | 0.05486 | SQUAMOUS |
| CL2001032130AA (testset) | other | 0.02472 | 0.97528 | other |
| CL2001032132AA (testset) | other | 0.00636 | 0.99364 | other |
| CL2001032134AA (testset) | other | 0.07021 | 0.92979 | other |
| CL2001032135AA (testset) | other | 0.03311 | 0.96689 | other |
| CL2001032136AA (testset) | other | 0.03581 | 0.96419 | other |
| CL2001032138AA (testset) | other | 0.0104 | 0.9896 | other |
| CL2001032141AA (testset) | other | 0.02468 | 0.97532 | other |
| CL2001032142AA (testset) | other | 0.17798 | 0.82202 | other |
| CL2001032144AA (testset) | SQUAMOUS | 0.90839 | 0.09161 | SQUAMOUS |
| CL2001032145AA (testset) | other | 0.00147 | 0.99853 | other |
| CL2001032147AA (testset) | other | 0.01148 | 0.98852 | other |
| CL2001032149AA (testset) | other | 0.07185 | 0.92815 | other |
| CL2001032151AA (testset) | other | 0.00538 | 0.99462 | other |
| CL2001032152AA (testset) | other | 0.00187 | 0.99813 | other |
| CL2001032153AA (testset) | SQUAMOUS | 0.78495 | 0.21505 | SQUAMOUS |
| CL2001032155AA (testset) | other | 0.18296 | 0.81704 | other |
| CL2001032156AA (testset) | other | 0.03289 | 0.96711 | other |
| CL2001032202AA (testset) | other | 0.00848 | 0.99152 | other |
| CL2001032206AA (testset) | other | 0.00716 | 0.99284 | other |
| CL2001032207AA (testset) | SQUAMOUS | 0.80773 | 0.19227 | SQUAMOUS |
| CL2001032209AA (testset) | SQUAMOUS | 0.86533 | 0.13467 | SQUAMOUS |
| CL2001032210AA (testset) | other | 0.0057 | 0.9943 | other |
| CL2001032211AA (testset) | other | 0.03055 | 0.96945 | other |
| CL2001032212AA (testset) | other | 0.00591 | 0.99409 | other |
| CL2001032213AA (testset) | other | 0.02541 | 0.97459 | other |
| CL2001032214AA (testset) | other | 0.03481 | 0.96519 | other |
| CL2001032217AA (testset) | other | 0.01042 | 0.98958 | other |
| CL2001032218AA (testset) | SQUAMOUS | 0.82071 | 0.17929 | SQUAMOUS |
| CL2001032219AA (testset) | other | 0.01364 | 0.98636 | other |
| CL2001032220AA (testset) | other | 0.00281 | 0.99719 | other |
| CL2001032222AA (testset) | SQUAMOUS | 0.56325 | 0.43675 | SQUAMOUS |
| CL2001032229AA (testset) | other | 0.01308 | 0.98692 | other |
| CL2001032231AA (testset) | SQUAMOUS | 0.58958 | 0.41042 | SQUAMOUS |
| CL2001032232AA (testset) | other | 0.00555 | 0.99445 | other |
| CL2001032233AA (testset) | other | 0.0093 | 0.9907 | other |
| CL2001032238AA (testset) | other | 0.00134 | 0.99866 | other |
| CL2001032239AA (testset) | SQUAMOUS | 0.55733 | 0.44267 | SQUAMOUS |
| CL2001032240AA (testset) | SQUAMOUS | 0.82179 | 0.17821 | SQUAMOUS |
| CL2001032241AA (testset) | other | 0.00627 | 0.99373 | other |
| CL2001032242AA (testset) | other | 0.02094 | 0.97906 | other |
| CL2001032243AA (testset) | other | 0.00268 | 0.99732 | other |
| CL2001032248AA (testset) | other | 0.06182 | 0.93818 | other |
| CL2001032249AA (testset) | other | 0.00564 | 0.99436 | other |
| CL2001032252AA (testset) | other | 0.41469 | 0.58531 | other |
| CL2001032254AA (testset) | other | 0.00485 | 0.99515 | other |
| CL2001032255AA (testset) | other | 0.01489 | 0.98511 | other |
| CL2001032256AA (testset) | other | 0.00487 | 0.99513 | other |
| CL2001032259AA (testset) | other | 0.03011 | 0.96989 | other |
| CL2001032260AA (testset) | other | 0.0119 | 0.9881 | other |
| CL2001032301AA (testset) | other | 0.04957 | 0.95043 | other |
| CL2001032304AA (testset) | other | 0.01387 | 0.98613 | other |
| CL2001032305AA (testset) | SQUAMOUS | 0.33011 | 0.66989 | other |
| CL2001032306AA (testset) | other | 0.03918 | 0.96082 | other |
| CL2001032307AA (testset) | other | 0.01506 | 0.98494 | other |
| CL2001032308AA (testset) | other | 0.10103 | 0.89897 | other |
| CL2001032309AA (testset) | other | 0.00357 | 0.99643 | other |
| CL2001032310AA (testset) | other | 0.00281 | 0.99719 | other |
| CL2001032311AA (testset) | other | 0.28824 | 0.71176 | other |
| CL2001032312AA (testset) | other | 0.00577 | 0.99423 | other |
| CL2001032313AA (testset) | other | 0.00523 | 0.99477 | other |
| CL2001032314AA (testset) | other | 0.00424 | 0.99576 | other |
| CL2001032316AA (testset) | other | 0.00974 | 0.99026 | other |
| CL2001032601AA (testset) | other | 0.03796 | 0.96204 | other |
| CL2001032602AA (testset) | other | 0.00817 | 0.99183 | other |
| CL2001032604AA (testset) | other | 0.00433 | 0.99567 | other |
| CL2001032607AA (testset) | other | 0.0051 | 0.9949 | other |
| CL2001032608AA (testset) | SQUAMOUS | 0.89547 | 0.10453 | SQUAMOUS |
| CL2001032610AA (testset) | other | 0.0174 | 0.9826 | other |
| CL2001032612AA (testset) | other | 0.00517 | 0.99483 | other |
| CL2001032613AA (testset) | other | 0.01319 | 0.98681 | other |
| CL2001032614AA (testset) | other | 0.00695 | 0.99305 | other |
| CL2001032616AA (testset) | other | 0.00341 | 0.99659 | other |
| CL2001032617AA (testset) | other | 0.0347 | 0.9653 | other |
| CL2001032620AA (testset) | other | 0.00438 | 0.99562 | other |
| CL2001032625AA (testset) | other | 0.00262 | 0.99738 | other |
| CL2001032627AA (testset) | SQUAMOUS | 0.96096 | 0.03904 | SQUAMOUS |
| CL2001032628AA (testset) | other | 0.00832 | 0.99168 | other |
| CL2001032629AA (testset) | other | 0.0012 | 0.9988 | other |
| CL2001032630AA (testset) | other | 0.00491 | 0.99509 | other |
| CL2001032632AA (testset) | other | 0.01762 | 0.98238 | other |
| CL2001032638AA (testset) | other | 0.01271 | 0.98729 | other |
| CL2001032640AA (testset) | other | 0.00435 | 0.99565 | other |
| CL2001032643AA (testset) | other | 0.06837 | 0.93163 | other |
| CL2001032644AA (testset) | SQUAMOUS | 0.87472 | 0.12528 | SQUAMOUS |
| CL2001032647AA (testset) | other | 0.00566 | 0.99434 | other |
| CL2001032701AA (testset) | other | 0.00708 | 0.99292 | other |
| CL2001032702AA (testset) | other | 0.04202 | 0.95798 | other |
| CL2001032703AA (testset) | other | 0.07396 | 0.92604 | other |
| CL2001032704AA (testset) | other | 0.02938 | 0.97062 | other |
| CL2001032706AA (testset) | other | 0.02142 | 0.97858 | other |
| CL2001032709AA (testset) | other | 0.01875 | 0.98125 | other |
| CL2001032716AA (testset) | other | 0.19194 | 0.80806 | other |
| CL2001032717AA (testset) | other | 0.00452 | 0.99548 | other |
| CL2001032718AA (testset) | other | 0.02546 | 0.97454 | other |
| CL2001032719AA (testset) | SQUAMOUS | 0.70591 | 0.29409 | SQUAMOUS |
| CL2001032720AA (testset) | other | 0.03887 | 0.96113 | other |
| CL2001032722AA (testset) | other | 0.01632 | 0.98368 | other |
| CL2001032724AA (testset) | other | 0.00522 | 0.99478 | other |
| CL2001032725AA (testset) | other | 0.00502 | 0.99498 | other |
| CL2001032727AA (testset) | other | 0.0042 | 0.9958 | other |
| CL2001032729AA (testset) | other | 0.01001 | 0.98999 | other |
| CL2001032730AA (testset) | other | 0.00829 | 0.99171 | other |
| CL2001032732AA (testset) | SQUAMOUS | 0.07349 | 0.92651 | other |
| CL2001032733AA (testset) | other | 0.01193 | 0.98807 | other |
| CL2001032738AA (testset) | other | 0.04982 | 0.95018 | other |
| CL2001032742AA (testset) | other | 0.14922 | 0.85078 | other |
| CL2001032746AA (testset) | other | 0.06446 | 0.93554 | other |
| CL2001032747AA (testset) | other | 0.011 | 0.989 | other |
| CL2001032833AA (testset) | other | 0.0343 | 0.9657 | other |
| CL2001032836AA (testset) | other | 0.19406 | 0.80594 | other |
| CL2001032838AA (testset) | other | 0.02688 | 0.97312 | other |
| CL2001032839AA (testset) | other | 0.01332 | 0.98668 | other |
| CL2001032841AA (testset) | other | 0.0032 | 0.9968 | other |
| CL2001032842AA (testset) | other | 0.01942 | 0.98058 | other |
| CL2001032843AA (testset) | other | 0.00735 | 0.99265 | other |
| CL2001032845AA (testset) | other | 0.00391 | 0.99609 | other |
| CL2001032846AA (testset) | other | 0.01379 | 0.98621 | other |
| CL2001032847AA (testset) | other | 0.00507 | 0.99493 | other |
| CL2001032848AA (testset) | other | 0.05575 | 0.94425 | other |
| CL2001032850AA (testset) | other | 0.00301 | 0.99699 | other |
| CL2001032853AA (testset) | SQUAMOUS | 0.86643 | 0.13357 | SQUAMOUS |
| CL2001032854AA (testset) | other | 0.00309 | 0.99691 | other |
| CL2001032856AA (testset) | other | 0.00882 | 0.99118 | other |
| CL2001032857AA (testset) | other | 0.00231 | 0.99769 | other |
| CL2001032860AA (testset) | other | 0.01083 | 0.98917 | other |
| CL2001040305AA (testset) | other | 0.01918 | 0.98082 | other |
| CL2001040306AA (testset) | other | 0.00563 | 0.99437 | other |
| CL2001041708AA (testset) | other | 0.02248 | 0.97752 | other |
| CL2001041711AA (testset) | other | 0.00333 | 0.99667 | other |
| CL2001041716AA (testset) | other | 0.01006 | 0.98994 | other |
| CL2001042501AA (testset) | other | 0.00191 | 0.99809 | other |
| CL2001042505AA (testset) | other | 0.0427 | 0.9573 | other |
| CL2001042506AA (testset) | other | 0.02099 | 0.97901 | other |
