Workflow Entry: Identification of differential genes using t-tests by R

Created at: 15/04/08 @ 15:37:42      Last updated: 01/07/08 @ 17:21:18
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Version created on: 15/04/08 @ 15:37:42 by: Peter Li   |   Revision comment Expand

Last edited on: 01/07/08 @ 17:21:18 by: Peter Li

Title: Identification of differential genes using t-tests by R

Type: Taverna 1


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This workflow starts by retrieving the names of microarray datasets from the Maxd database. The user has to select sets of control and test data for analysis using t-tests by R. A list of significant differentially expressed genes is then analysed using the Go Term Finder tool which generates a list of GO terms associated with the genes. A CSV file containing the list of significant genes is also generated.


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Citations (1)

1. Li, P., Castrillo, J. I., Velarde, G., Wassink, I., Soiland-Reyes, S., Owen, S., Withers, D., Oinn, T., Pocock, M. R., Goble, C. A., Oliver, S. G. & Kell, D. B., Performing statistical analyses on quantitative data in Taverna workflows: an example using R and maxdBrowse to identify differentially expressed genes from microarray data, BMC Bioinformatics 2008, 9:334, 07 August 2008, http://www.biomedcentral.com/1471-2105/9/334


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Workflow Other workflows that use similar services (3)

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Original Uploader

Workflow Identification of differential genes using... (1)

Created: 02/07/08 @ 11:24:12 | Last updated: 02/07/08 @ 11:28:21

Credits: User Peter Li

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow starts by retrieving the names of microarray datasets from the Maxd database. The user has to select sets of control and test data which are then analysed by the LIMMA Bioconductor package in an R script. This produces a list of significant differentially expressed genes which is then analysed using the Go Term Finder tool to generate a PDF report of the common GO terms associated with the genes. A CSV file containing the list of sign...

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

Viewed: 691 times | Downloaded: 279 times

Tags (6):

Original Uploader

Workflow Mapping microarray data onto metabolic pat... (1)

Created: 14/11/07 @ 16:51:26 | Last updated: 22/11/07 @ 10:39:32

Credits: User Peter Li

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow maps microarray data onto metabolic pathway diagrams represented as SBML models drawn using Cell Designer. To run this workflow requires libsbml to be installed into taverna - see http://www.mcisb.org/software/taverna/libsbml/index.html

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

Viewed: 654 times | Downloaded: 207 times

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Non-Information Resource URI: http://www.myexperiment.org/workflows/181


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