StAM-Report on Model Fit


Information on Model Fit


Performance vs. redundancy


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 Best DeltaRoot Error RatePerformanceRedundancy#Nodes#Genes
000.02630.65630.85342675437
0.10.14580.02630.55560.89662155402
0.20.43740.02630.39761.1956835160
0.30.43740.02630.39761.1956835160
0.40.58320.02630.3071.7513464557
0.50.72890.02630.24642.235404495
0.60.72890.02630.24642.235404495
0.71.166300.07465.5309121072
0.81.166300.07465.5309121072
0.91.166300.07465.5309121072
11.166300.07465.5309121072


Fit for D = 0.7289

Number of classes: 2
Class weights: 'ALL': 0.632 'AML': 0.368
Class prior: 'ALL':0.632 'AML':0.368
Chosen shrinkage level: 0.729
(by accepting the system default (after consulting weighting alternatives) )
Number of nodes left 40
Number of accessible genes 4495

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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Details and Performance of GO-nodes


GO:0005575

cellular_component

Cellular
Component

Parent node

5 child nodes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005576

extracellular

Cellular
Component

Parent node

3 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.916671
AML10.91667


GO:0005615

extracellular space

Cellular
Component

Parent node

6 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.916670.92857
AML0.928570.91667


GO:0005615

extracellular space
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 256 genes

Performance on training data

 SensitivitySpecificity
ALL0.916670.92857
AML0.928570.91667


GO:0005578

extracellular matrix

Cellular
Component

Parent node

6 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.916671
AML10.91667


GO:0005578

extracellular matrix
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 122 genes

Performance on training data

 SensitivitySpecificity
ALL0.916671
AML10.91667


GO:0008372

cellular_component unknown
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 218 genes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571


GO:0005623

cell

Cellular
Component

Parent node

9 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571


GO:0016020

membrane

Cellular
Component

Parent node

12 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.958331
AML10.95833


GO:0005886

plasma membrane

Cellular
Component

Parent node

17 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.958331
AML10.95833


GO:0005886

plasma membrane
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 203 genes

Performance on training data

 SensitivitySpecificity
ALL0.916670.92857
AML0.928570.91667


GO:0016021

integral to membrane

Cellular
Component

Parent node

10 child nodes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0016021

integral to membrane
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 817 genes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005887

integral to plasma membrane

Cellular
Component

Parent nodes

15 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.958331
AML10.95833


GO:0005887

integral to plasma membrane
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 817 genes

Performance on training data

 SensitivitySpecificity
ALL0.958331
AML10.95833


GO:0008305

integrin complex
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 44 genes

Performance on training data

 SensitivitySpecificity
ALL0.958330.92857
AML0.928570.95833


GO:0005622

intracellular

Cellular
Component

Parent node

15 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571


GO:0005622

intracellular
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 162 genes

Performance on training data

 SensitivitySpecificity
ALL0.958330.78571
AML0.785710.95833


GO:0005634

nucleus

Cellular
Component

Parent node

16 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.958330.92857
AML0.928570.95833


GO:0005634

nucleus
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 1569 genes

Performance on training data

 SensitivitySpecificity
ALL0.958330.92857
AML0.928570.95833


GO:0005737

cytoplasm

Cellular
Component

Parent node

32 child nodes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005737

cytoplasm
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 499 genes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571


GO:0005764

lysosome

Cellular
Component

2 parent nodes replaced:

Parent node

3 child nodes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005764

lysosome
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 76 genes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005794

Golgi apparatus

Cellular
Component

Parent node

8 child nodes

Performance on training data

 SensitivitySpecificity
ALL0.916670.92857
AML0.928570.91667


GO:0005794

Golgi apparatus
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 130 genes

Performance on training data

 SensitivitySpecificity
ALL0.916670.92857
AML0.928570.91667


GO:0005783

endoplasmic reticulum

Cellular
Component

Parent node

8 child nodes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005783

endoplasmic reticulum
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 173 genes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005829

cytosol

Cellular
Component

Parent node

9 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.85714
AML0.857141


GO:0005829

cytosol
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 109 genes

Performance on training data

 SensitivitySpecificity
ALL10.85714
AML0.857141


GO:0005856

cytoskeleton

Cellular
Component

Parent node

6 child nodes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0005856

cytoskeleton
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 165 genes

Performance on training data

 SensitivitySpecificity
ALL11
AML11


GO:0015629

actin cytoskeleton

Cellular
Component

Parent node

12 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.85714
AML0.857141


GO:0005938

cell cortex

Cellular
Component

Parent node

4 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.85714
AML0.857141


GO:0030864

cortical actin cytoskeleton

Cellular
Component

1 parent node replaced:

Parent nodes

2 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.85714
AML0.857141


GO:0008091

spectrin
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 6 genes

Performance on training data

 SensitivitySpecificity
ALL10.85714
AML0.857141


GO:0000267

cell fraction

Cellular
Component

Parent node

4 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571


GO:0005625

soluble fraction
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 184 genes

Performance on training data

 SensitivitySpecificity
ALL0.916670.78571
AML0.785710.91667


GO:0005624

membrane fraction

Cellular
Component

Parent node

4 child nodes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571


GO:0005624

membrane fraction
(annotated genes)

Cellular
Component

Parent node

This leaf node contains 319 genes

Performance on training data

 SensitivitySpecificity
ALL10.92857
AML0.928571

 


Generated by StAM on Mon Nov 1 10:22:33 2004