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Wei Tan

Lymphoma type prediction based on microarray data (v6)

Created: 23/04/09 @ 17:10:37 | Last updated: 16/11/09 @ 06:21:21

Credits: Wei Tan Madduri Stian Soiland-Reyes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Scientific value Using gene-expression patterns associated with DLBCL and FL to predict the lymphoma type of an unknown sample. Using SVM (Support Vector Machine) to classify data, and predicting the tumor types of unknown examples. Steps Querying training data from experiments stored in caArray. Preprocessing, or normalize the microarray data. Adding training and testing data into SVM service to get classification result.

Rating: 0.0 / 5 (0 ratings) | Versions: 6 | Reviews: 0 | Comments: 0 | Citations: 2

Viewed: 206 times | Downloaded: 90 times

Original Uploader

Wei Tan

hierarchical microarray clustering (v1)

Created: 05/12/08 @ 18:31:53 | Last updated: 05/12/08 @ 20:33:39

Credits: Wei Tan

License: Creative Commons Attribution-Share Alike 3.0 Unported License

To illustrate our caGrid plug-in’s application, we tested it with a microarray hierarchical clustering workflow that involves services hosted at multiple institutions. Microarrays are a high-throughput technology used to measure the expression of tens of thousands of genes in different tissues or cells. Scientists represent the data from each microarray via a vector (profile) in which each element represents a gene’s expression level. They use clustering analysis to identify sim...

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Original Uploader

Wei Tan

caDSR metadata query in caGrid (v1)

Created: 05/12/08 @ 17:45:17 | Last updated: 05/12/08 @ 18:20:26

Credits: Wei Tan

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This workflow shows the coordinated use of two services in CaGrid, i.e., the caDSR (Cancer Data Standards Repository) and EVS (Enterprise Vocabulary Services) services. caDSR is to define a comprehensive set of standardized metadata descriptors for cancer research terminology used in information collection and analysis. EVS provides resources and services to meet NCI needs for controlled terminology, and to facilitate the standardization of terminology and information systems across the Insti...

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Original Uploader

Wei Tan

CaDSRDataService Sample Workflow (v2)

Created: 02/09/09 @ 16:53:05 | Last updated: 03/09/09 @ 23:11:19

Credits: Wei Tan

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This workflow is used as an example in this wiki article: https://wiki.cagrid.org/display/knowledgebase/How+to+Create+CaGrid+Workflow+Using+Taverna+2

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

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Original Uploader

Wei Tan

genePattern data preprocessing (v1)

Created: 23/11/09 @ 18:13:09 | Last updated: 23/11/09 @ 18:13:10

Credits: Wei Tan

License: Creative Commons Attribution-Share Alike 3.0 Unported License

preprocess data set using genePattern preProces service, the input should be in genePattern STATML format. Configuration parameters can be adjusted by changing the default preprocess data set using genePattern preProces service, the input should be in genePattern STATML format.preprocess data set using genePattern preProces service, the input should be in genePattern STATML format. Configuration parameters can be adjusted by changing the string constants.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

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