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| Total number of samples: | 203 |
|---|---|
| Training samples: | 203 ( 20 from CARCINOID, 183 from other ) |
| Test samples: | 203 ( 20 from CARCINOID, 183 from other ) |
| Focus on class: | CARCINOID |
| 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: | 'CARCINOID': 0.05 'other': 0.95 |
| Class prior: | 'CARCINOID':0.099 'other':0.901 |
| Shrinkage candidates: | 0, 0.029, 0.057, 0.086, 0.114, 0.143, 0.172, 0.2, 0.229, 0.257, 0.286, 0.315, 0.343, 0.372, 0.4, 0.429, 0.457, 0.486, 0.515, 0.543, 0.572, 0.6, 0.629, 0.658, 0.686, 0.715, 0.743, 0.772, 0.801, 0.829 |
| Root.error.rate | Root.performance | Mean.redundancy | Nodes | Genes | |
|---|---|---|---|---|---|
| 0 | 0.00493 | 0.24395 | 1.8726 | 2203 | 8657 |
| 0.029 | 0.00493 | 0.24252 | 1.87337 | 2203 | 8657 |
| 0.057 | 0.00493 | 0.2409 | 1.87424 | 2203 | 8657 |
| 0.086 | 0.00493 | 0.23907 | 1.87526 | 2203 | 8657 |
| 0.114 | 0.00493 | 0.23699 | 1.87644 | 2203 | 8657 |
| 0.143 | 0.00493 | 0.23458 | 1.87695 | 2202 | 8553 |
| 0.172 | 0.00493 | 0.23177 | 1.87862 | 2202 | 8553 |
| 0.2 | 0.00493 | 0.22846 | 1.88066 | 2202 | 8553 |
| 0.229 | 0.00493 | 0.22447 | 1.88322 | 2202 | 8553 |
| 0.257 | 0.00493 | 0.21957 | 1.88651 | 2202 | 8553 |
| 0.286 | 0.00493 | 0.2134 | 1.89093 | 2202 | 8553 |
| 0.315 | 0.00493 | 0.20533 | 1.89722 | 2202 | 8553 |
| 0.343 | 0.00493 | 0.19415 | 1.90697 | 2202 | 8553 |
| 0.372 | 0.00493 | 0.17676 | 1.92464 | 2202 | 8553 |
| 0.4 | 0.00493 | 0.14051 | 1.97473 | 2201 | 8230 |
| 0.429 | 0 | 0.13937 | 2.62997 | 932 | 7808 |
| 0.457 | 0 | 0.13743 | 2.65774 | 917 | 7803 |
| 0.486 | 0 | 0.1347 | 2.67725 | 900 | 7690 |
| 0.515 | 0 | 0.12994 | 2.72066 | 874 | 7660 |
| 0.543 | 0 | 0.1226 | 2.77817 | 813 | 7593 |
| 0.572 | 0 | 0.11294 | 2.85996 | 740 | 7230 |
| 0.6 | 0 | 0.1045 | 3.01517 | 620 | 7054 |
| 0.629 | 0 | 0.09556 | 3.16008 | 513 | 6552 |
| 0.658 | 0 | 0.08557 | 3.35685 | 413 | 6107 |
| 0.686 | 0 | 0.07386 | 3.67541 | 316 | 5467 |
| 0.715 | 0 | 0.06172 | 4.1837 | 228 | 4187 |
| 0.743 | 0 | 0.04689 | 5.14341 | 153 | 3461 |
| 0.772 | 0 | 0.03197 | 7.7286 | 85 | 2639 |
| 0.801 | 0 | 0.02695 | 13.72348 | 55 | 2038 |
| Best Delta | Root Error Rate | Performance | Redundancy | #Nodes | #Genes | |
|---|---|---|---|---|---|---|
| 0 | 0 | 0.0049 | 0.244 | 1.8726 | 2203 | 8657 |
| 0.1 | 0.4003 | 0.0049 | 0.1405 | 1.9747 | 2201 | 8230 |
| 0.2 | 0.4003 | 0.0049 | 0.1405 | 1.9747 | 2201 | 8230 |
| 0.3 | 0.4003 | 0.0049 | 0.1405 | 1.9747 | 2201 | 8230 |
| 0.4 | 0.6862 | 0 | 0.0739 | 3.6754 | 316 | 5467 |
| 0.5 | 0.7148 | 0 | 0.0617 | 4.1837 | 228 | 4187 |
| 0.6 | 0.7434 | 0 | 0.0469 | 5.1434 | 153 | 3461 |
| 0.7 | 0.7434 | 0 | 0.0469 | 5.1434 | 153 | 3461 |
| 0.8 | 0.772 | 0 | 0.032 | 7.7286 | 85 | 2639 |
| 0.9 | 0.772 | 0 | 0.032 | 7.7286 | 85 | 2639 |
| 1 | 0.8006 | 0 | 0.027 | 13.7235 | 55 | 2038 |
| Number of classes: | 2 |
|---|---|
| Class weights: | 'CARCINOID': 0.05 'other': 0.95 |
| Class prior: | 'CARCINOID':0.099 'other':0.901 |
| Chosen shrinkage level: | 0.772 (by accepting the system default (after consulting weighting alternatives) ) |
| Number of nodes left | 85 |
| Number of accessible genes | 2639 |
Hover over a node to see its description, click on it to view its detailed results.
| Number of samples: | 203 (20 from CARCINOID, 183 from other) |
|---|---|
| Classes: | CARCINOID, 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 | 0.51414 |
| GO:0007275 | development | 0.00000 |
| GO:0008371 | obsolete biological process | 0.00000 |
| GO:0007582 | physiological process | 0.48586 |
| GO:0050789 | regulation of biological process | 0.00000 |
| GO:0016032 | viral life cycle | 0.00000 |
| Sensitivity | Specificity | |
|---|---|---|
| CARCINOID | 1 | 0.99454 |
| other | 0.99454 | 1 |
| Sensitivity | Specificity | |
|---|---|---|
| CARCINOID | 1 | 1 |
| other | 1 | 1 |
| Class | CARCINOID | other | Predictionn | |
|---|---|---|---|---|
| CL2001031606AA (testset) | other | 0.00463 | 0.99537 | other |
| CL2001031607AA (testset) | other | 0.00065 | 0.99935 | other |
| CL2001031608AA (testset) | other | 0.00146 | 0.99854 | other |
| CL2001031609AA (testset) | CARCINOID | 0.99822 | 0.00178 | CARCINOID |
| CL2001031611AA (testset) | other | 0.00098 | 0.99902 | other |
| CL2001031612AA (testset) | other | 0.00039 | 0.99961 | other |
| CL2001031613AA (testset) | other | 0.00062 | 0.99938 | other |
| CL2001031615AA (testset) | other | 0.00096 | 0.99904 | other |
| CL2001031616AA (testset) | other | 0.00018 | 0.99982 | other |
| CL2001031618AA (testset) | other | 0.01015 | 0.98985 | other |
| CL2001031620AA (testset) | other | 0.00076 | 0.99924 | other |
| CL2001031621AA (testset) | other | 0.00014 | 0.99986 | other |
| CL2001031622AA (testset) | other | 0.00018 | 0.99982 | other |
| CL2001031625AA (testset) | other | 0.00163 | 0.99837 | other |
| CL2001031627AA (testset) | other | 0.00054 | 0.99946 | other |
| CL2001031628AA (testset) | other | 0.00054 | 0.99946 | other |
| CL2001031629AA (testset) | other | 7e-04 | 0.9993 | other |
| CL2001031630AA (testset) | other | 0.00479 | 0.99521 | other |
| CL2001031631AA (testset) | other | 0.00019 | 0.99981 | other |
| CL2001031632AA (testset) | other | 0.00094 | 0.99906 | other |
| CL2001031634AA (testset) | other | 0.00125 | 0.99875 | other |
| CL2001031635AA (testset) | other | 0.00188 | 0.99812 | other |
| CL2001031636AA (testset) | other | 0.00017 | 0.99983 | other |
| CL2001032002AA (testset) | other | 0.00313 | 0.99687 | other |
| CL2001032005AA (testset) | other | 0.04847 | 0.95153 | other |
| CL2001032008AA (testset) | other | 0.00015 | 0.99985 | other |
| CL2001032009AA (testset) | other | 0.00601 | 0.99399 | other |
| CL2001032010AA (testset) | other | 0.00208 | 0.99792 | other |
| CL2001032011AA (testset) | other | 0.00144 | 0.99856 | other |
| CL2001032012AA (testset) | other | 8e-04 | 0.9992 | other |
| CL2001032013AA (testset) | other | 0.00521 | 0.99479 | other |
| CL2001032015AA (testset) | other | 0.00845 | 0.99155 | other |
| CL2001032016AA (testset) | other | 0.00069 | 0.99931 | other |
| CL2001032019AA (testset) | other | 0.00051 | 0.99949 | other |
| CL2001032020AA (testset) | other | 0.00022 | 0.99978 | other |
| CL2001032025AA (testset) | other | 0.00572 | 0.99428 | other |
| CL2001032026AA (testset) | other | 0.00335 | 0.99665 | other |
| CL2001032027AA (testset) | other | 0.00018 | 0.99982 | other |
| CL2001032030AA (testset) | other | 0.00045 | 0.99955 | other |
| CL2001032031AA (testset) | other | 0.00043 | 0.99957 | other |
| CL2001032032AA (testset) | other | 0.00214 | 0.99786 | other |
| CL2001032034AA (testset) | other | 0.00433 | 0.99567 | other |
| CL2001032036AA (testset) | other | 0.00395 | 0.99605 | other |
| CL2001032041AA (testset) | other | 0.00118 | 0.99882 | other |
| CL2001032043AA (testset) | other | 0.00157 | 0.99843 | other |
| CL2001032044AA (testset) | CARCINOID | 0.99652 | 0.00348 | CARCINOID |
| CL2001032045AA (testset) | other | 0.00193 | 0.99807 | other |
| CL2001032046AA (testset) | other | 0.00241 | 0.99759 | other |
| CL2001032101AA (testset) | CARCINOID | 0.99262 | 0.00738 | CARCINOID |
| CL2001032102AA (testset) | other | 0.00282 | 0.99718 | other |
| CL2001032103AA (testset) | other | 0.01235 | 0.98765 | other |
| CL2001032104AA (testset) | other | 0.00055 | 0.99945 | other |
| CL2001032105AA (testset) | other | 0.00168 | 0.99832 | other |
| CL2001032107AA (testset) | other | 0.00107 | 0.99893 | other |
| CL2001032108AA (testset) | other | 0.00494 | 0.99506 | other |
| CL2001032109AA (testset) | other | 0.01403 | 0.98597 | other |
| CL2001032110AA (testset) | other | 0.00099 | 0.99901 | other |
| CL2001032111AA (testset) | other | 0.00096 | 0.99904 | other |
| CL2001032113AA (testset) | other | 0.03252 | 0.96748 | other |
| CL2001032114AA (testset) | other | 0.00065 | 0.99935 | other |
| CL2001032115AA (testset) | other | 0.04397 | 0.95603 | other |
| CL2001032116AA (testset) | other | 0.00117 | 0.99883 | other |
| CL2001032117AA (testset) | other | 3e-04 | 0.9997 | other |
| CL2001032121AA (testset) | other | 0.04185 | 0.95815 | other |
| CL2001032122AA (testset) | other | 1e-04 | 0.9999 | other |
| CL2001032124AA (testset) | CARCINOID | 0.97993 | 0.02007 | CARCINOID |
| CL2001032125AA (testset) | other | 0.00199 | 0.99801 | other |
| CL2001032127AA (testset) | CARCINOID | 0.96199 | 0.03801 | CARCINOID |
| CL2001032128AA (testset) | other | 0.00533 | 0.99467 | other |
| CL2001032129AA (testset) | other | 0.00021 | 0.99979 | other |
| CL2001032130AA (testset) | other | 0.00025 | 0.99975 | other |
| CL2001032132AA (testset) | other | 0.00063 | 0.99937 | other |
| CL2001032134AA (testset) | other | 0.00065 | 0.99935 | other |
| CL2001032135AA (testset) | other | 0.00032 | 0.99968 | other |
| CL2001032136AA (testset) | other | 0.00032 | 0.99968 | other |
| CL2001032138AA (testset) | other | 0.00023 | 0.99977 | other |
| CL2001032141AA (testset) | other | 5e-04 | 0.9995 | other |
| CL2001032142AA (testset) | other | 0.00203 | 0.99797 | other |
| CL2001032144AA (testset) | other | 0.00011 | 0.99989 | other |
| CL2001032145AA (testset) | CARCINOID | 0.9989 | 0.0011 | CARCINOID |
| CL2001032147AA (testset) | other | 0.00069 | 0.99931 | other |
| CL2001032149AA (testset) | other | 0.00027 | 0.99973 | other |
| CL2001032151AA (testset) | CARCINOID | 0.99725 | 0.00275 | CARCINOID |
| CL2001032152AA (testset) | CARCINOID | 0.99916 | 0.00084 | CARCINOID |
| CL2001032153AA (testset) | other | 0.00111 | 0.99889 | other |
| CL2001032155AA (testset) | other | 0.00023 | 0.99977 | other |
| CL2001032156AA (testset) | other | 0.00077 | 0.99923 | other |
| CL2001032202AA (testset) | other | 0.00199 | 0.99801 | other |
| CL2001032206AA (testset) | other | 0.00162 | 0.99838 | other |
| CL2001032207AA (testset) | other | 0.00016 | 0.99984 | other |
| CL2001032209AA (testset) | other | 0.00012 | 0.99988 | other |
| CL2001032210AA (testset) | CARCINOID | 0.97715 | 0.02285 | CARCINOID |
| CL2001032211AA (testset) | other | 0.00025 | 0.99975 | other |
| CL2001032212AA (testset) | other | 0.00144 | 0.99856 | other |
| CL2001032213AA (testset) | other | 0.00135 | 0.99865 | other |
| CL2001032214AA (testset) | other | 0.00095 | 0.99905 | other |
| CL2001032217AA (testset) | other | 0.04156 | 0.95844 | other |
| CL2001032218AA (testset) | other | 0.00022 | 0.99978 | other |
| CL2001032219AA (testset) | CARCINOID | 0.99276 | 0.00724 | CARCINOID |
| CL2001032220AA (testset) | other | 0.0027 | 0.9973 | other |
| CL2001032222AA (testset) | other | 0.00021 | 0.99979 | other |
| CL2001032229AA (testset) | other | 0.0017 | 0.9983 | other |
| CL2001032231AA (testset) | other | 0.00055 | 0.99945 | other |
| CL2001032232AA (testset) | other | 0.00021 | 0.99979 | other |
| CL2001032233AA (testset) | other | 0.00022 | 0.99978 | other |
| CL2001032238AA (testset) | CARCINOID | 0.99186 | 0.00814 | CARCINOID |
| CL2001032239AA (testset) | other | 0.00037 | 0.99963 | other |
| CL2001032240AA (testset) | other | 0.00028 | 0.99972 | other |
| CL2001032241AA (testset) | other | 0.00027 | 0.99973 | other |
| CL2001032242AA (testset) | other | 9e-05 | 0.99991 | other |
| CL2001032243AA (testset) | other | 0.00223 | 0.99777 | other |
| CL2001032248AA (testset) | other | 0.00013 | 0.99987 | other |
| CL2001032249AA (testset) | other | 0.00045 | 0.99955 | other |
| CL2001032252AA (testset) | other | 0.00023 | 0.99977 | other |
| CL2001032254AA (testset) | other | 0.00044 | 0.99956 | other |
| CL2001032255AA (testset) | other | 0.00061 | 0.99939 | other |
| CL2001032256AA (testset) | other | 0.00208 | 0.99792 | other |
| CL2001032259AA (testset) | other | 0.00391 | 0.99609 | other |
| CL2001032260AA (testset) | other | 0.09548 | 0.90452 | other |
| CL2001032301AA (testset) | other | 0.00027 | 0.99973 | other |
| CL2001032304AA (testset) | other | 0.00073 | 0.99927 | other |
| CL2001032305AA (testset) | other | 0.00017 | 0.99983 | other |
| CL2001032306AA (testset) | other | 0.00055 | 0.99945 | other |
| CL2001032307AA (testset) | other | 0.00068 | 0.99932 | other |
| CL2001032308AA (testset) | other | 0.00143 | 0.99857 | other |
| CL2001032309AA (testset) | other | 0.00539 | 0.99461 | other |
| CL2001032310AA (testset) | other | 0.00406 | 0.99594 | other |
| CL2001032311AA (testset) | other | 0.00015 | 0.99985 | other |
| CL2001032312AA (testset) | other | 3e-04 | 0.9997 | other |
| CL2001032313AA (testset) | other | 0.00147 | 0.99853 | other |
| CL2001032314AA (testset) | other | 9e-04 | 0.9991 | other |
| CL2001032316AA (testset) | other | 0.00028 | 0.99972 | other |
| CL2001032601AA (testset) | other | 0.00046 | 0.99954 | other |
| CL2001032602AA (testset) | other | 0.00053 | 0.99947 | other |
| CL2001032604AA (testset) | other | 0.00046 | 0.99954 | other |
| CL2001032607AA (testset) | CARCINOID | 0.99601 | 0.00399 | CARCINOID |
| CL2001032608AA (testset) | other | 0.00113 | 0.99887 | other |
| CL2001032610AA (testset) | other | 0.00032 | 0.99968 | other |
| CL2001032612AA (testset) | other | 0.00233 | 0.99767 | other |
| CL2001032613AA (testset) | other | 0.00037 | 0.99963 | other |
| CL2001032614AA (testset) | other | 0.00138 | 0.99862 | other |
| CL2001032616AA (testset) | other | 0.00219 | 0.99781 | other |
| CL2001032617AA (testset) | other | 0.00042 | 0.99958 | other |
| CL2001032620AA (testset) | other | 0.00064 | 0.99936 | other |
| CL2001032625AA (testset) | other | 0.03816 | 0.96184 | other |
| CL2001032627AA (testset) | other | 0.00031 | 0.99969 | other |
| CL2001032628AA (testset) | other | 0.00079 | 0.99921 | other |
| CL2001032629AA (testset) | CARCINOID | 0.99347 | 0.00653 | CARCINOID |
| CL2001032630AA (testset) | CARCINOID | 0.98749 | 0.01251 | CARCINOID |
| CL2001032632AA (testset) | other | 0.0099 | 0.9901 | other |
| CL2001032638AA (testset) | other | 0.00055 | 0.99945 | other |
| CL2001032640AA (testset) | other | 0.00056 | 0.99944 | other |
| CL2001032643AA (testset) | other | 0.00048 | 0.99952 | other |
| CL2001032644AA (testset) | other | 0.00017 | 0.99983 | other |
| CL2001032647AA (testset) | other | 0.00045 | 0.99955 | other |
| CL2001032701AA (testset) | other | 0.00046 | 0.99954 | other |
| CL2001032702AA (testset) | other | 0.00029 | 0.99971 | other |
| CL2001032703AA (testset) | other | 0.00019 | 0.99981 | other |
| CL2001032704AA (testset) | other | 0.00138 | 0.99862 | other |
| CL2001032706AA (testset) | other | 0.00029 | 0.99971 | other |
| CL2001032709AA (testset) | other | 7e-04 | 0.9993 | other |
| CL2001032716AA (testset) | other | 0.00053 | 0.99947 | other |
| CL2001032717AA (testset) | other | 0.00068 | 0.99932 | other |
| CL2001032718AA (testset) | other | 0.00111 | 0.99889 | other |
| CL2001032719AA (testset) | other | 0.00027 | 0.99973 | other |
| CL2001032720AA (testset) | other | 0.09348 | 0.90652 | other |
| CL2001032722AA (testset) | CARCINOID | 0.99504 | 0.00496 | CARCINOID |
| CL2001032724AA (testset) | other | 0.00094 | 0.99906 | other |
| CL2001032725AA (testset) | other | 0.00296 | 0.99704 | other |
| CL2001032727AA (testset) | other | 0.00163 | 0.99837 | other |
| CL2001032729AA (testset) | other | 0.00018 | 0.99982 | other |
| CL2001032730AA (testset) | other | 0.00043 | 0.99957 | other |
| CL2001032732AA (testset) | other | 0.00034 | 0.99966 | other |
| CL2001032733AA (testset) | other | 0.00105 | 0.99895 | other |
| CL2001032738AA (testset) | other | 0.00018 | 0.99982 | other |
| CL2001032742AA (testset) | other | 0.00091 | 0.99909 | other |
| CL2001032746AA (testset) | other | 0.00028 | 0.99972 | other |
| CL2001032747AA (testset) | other | 0.00099 | 0.99901 | other |
| CL2001032833AA (testset) | other | 0.01036 | 0.98964 | other |
| CL2001032836AA (testset) | other | 0.00011 | 0.99989 | other |
| CL2001032838AA (testset) | other | 0.00083 | 0.99917 | other |
| CL2001032839AA (testset) | other | 0.00544 | 0.99456 | other |
| CL2001032841AA (testset) | other | 0.00126 | 0.99874 | other |
| CL2001032842AA (testset) | other | 0.00211 | 0.99789 | other |
| CL2001032843AA (testset) | other | 0.00185 | 0.99815 | other |
| CL2001032845AA (testset) | other | 0.00324 | 0.99676 | other |
| CL2001032846AA (testset) | other | 0.00313 | 0.99687 | other |
| CL2001032847AA (testset) | CARCINOID | 0.99607 | 0.00393 | CARCINOID |
| CL2001032848AA (testset) | other | 0.00092 | 0.99908 | other |
| CL2001032850AA (testset) | CARCINOID | 0.99665 | 0.00335 | CARCINOID |
| CL2001032853AA (testset) | other | 0.00174 | 0.99826 | other |
| CL2001032854AA (testset) | CARCINOID | 0.91594 | 0.08406 | CARCINOID |
| CL2001032856AA (testset) | other | 0.00131 | 0.99869 | other |
| CL2001032857AA (testset) | other | 0.00063 | 0.99937 | other |
| CL2001032860AA (testset) | CARCINOID | 0.99809 | 0.00191 | CARCINOID |
| CL2001040305AA (testset) | other | 0.00049 | 0.99951 | other |
| CL2001040306AA (testset) | other | 0.004 | 0.996 | other |
| CL2001041708AA (testset) | other | 0.00139 | 0.99861 | other |
| CL2001041711AA (testset) | other | 0.0027 | 0.9973 | other |
| CL2001041716AA (testset) | other | 0.00028 | 0.99972 | other |
| CL2001042501AA (testset) | CARCINOID | 0.99904 | 0.00096 | CARCINOID |
| CL2001042505AA (testset) | other | 0.00115 | 0.99885 | other |
| CL2001042506AA (testset) | other | 0.00151 | 0.99849 | other |
