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Cancer Biomedical Informatics Grid Links

caBIG Components

caCore Component Technologies & Services

Other Tools & Services
Data Simulator
Oncomine
Bioconductor
TM4
BRB Array Tools

A web application for the integrated analysis of global gene expression patterns in cancer

A paper describing caGEDA has been published. Click here to download [ PDF ]

A paper describing the PPST and ABA tests has been published. Click here for the full text [ FULLTEXT ]

[ Download caGEDA ]

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[ Technical Details ] [ Recommendations for Analysis ] [ Related Literature ] [ Data set Links ]

   
Sample Data set Formats: [ caGEDA format 1 ] [ caGEDA format 2 ]
UPITT Cancer Gene Expression Data set Links
Number of Samples
Number of Genes
Sample Classification
     
Normalization Step 1
Quantile
Normalization Order
Normalization Step 2
Quantile
Normalization Order
Normalization Step 3
Quantile
Normalization Order
Estimate Missing Values
Duplicate Gene Entry Compute Average of Genes with Identical Gene Names
Graphical Output Option Generate Sample Frequency Distribution Images
Generate Chromosome Map
Literature Search
   
Permutation Test
Permutation Count
Permutation Threshold
Test Threshold
Delta
Start : Stop : Step :
Delta'
Test for Differentially Expressed Genes
Quantiles
Quantiles
Threshold
n Fold Ratio
Threshold
Measure of Central Tendency
Special Options
Jackknife Count
Minimum Cluster Count
Maximum Gene Set Count
Expression Pattern Grid Generate Expression Pattern Grid
     
Classifier Algorithm
Distance Function
Propoprtion of Genes (0.5 - 0.9)
Prior for the Sample
Iterations
Neighbourhood Size
Common Neighbours
     
Computational Validation Option
Threshold for Test
Start : Stop : Step :
     
University of Pittsburgh. All rights reserved.
Report problems to Dr. James Lyons-Weiler (Principle Investigator)
Or to Satish Patel (Lead Application Engineer)
This page was last updated on July 10, 2004