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Bioinformatics Advance Access published online on July 28, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti600
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oupjournals.org
Received April 29, 2005
Revised July 10, 2005
Accepted July 26, 2005

Applications note

SpA: Web-accessible spectratype analysis: data management, statistical analysis and visualization

Min He 1, John K. Tomfohr 1, Blythe H. Devlin 2, Marcella Sarzotti 3, M. Louise Markert 4, and Thomas B. Kepler 5*

1 Department of Biostatistics & Bioinformatics and Center for Bioinformatics & Computational Biology, Institute for Genome Sciences & Policy, Duke University Medical Center, Durham, NC 27708
2 Department of Pediatrics, Duke University Medical Center, Durham, NC 27708
3 Department of Immunology, Duke University Medical Center, Durham, NC 27708
4 Department of Pediatrics, Duke University Medical Center, Durham, NC 27708; Department of Immunology, Duke University Medical Center, Durham, NC 27708
5 Department of Biostatistics & Bioinformatics and Center for Bioinformatics & Computational Biology, Institute for Genome Sciences & Policy, Duke University Medical Center, Durham, NC 27708; Department of Immunology, Duke University Medical Center, Durham, NC 27708

* To whom correspondence should be addressed.
Thomas B. Kepler, E-mail: kepler{at}duke.edu


  Abstract

Summary: SpA is a Web-accessible system for the management, visualization and statistical analysis of T-cell receptor spectratype data. Users upload data from their spectratype analyzers to SpA, which saves the raw data and user-defined supplementary covariates to a secure database. The statistical engine performs several data analyses and statistical summaries. The visualization engine displays spectratype histograms in a Java applet and in an image file suitable for download. All of these results are also saved on the database and remain accessible to the user. Additional statistical tools specific to the analysis of multiple spectratypes are also available through the SpA interface.

Availability: The service is freely accessible via the web at http://www.duke.edu/~kepler/spa.html. Additional technical support and specialized statistical analysis and consultation are available by arrangement with the authors and, depending on the service requested, may be subject to fee.


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