JETTA is an integrated software tool for expression indicies calcaultaion and alternative splicing analysis.
See more about JETTA
10/07/09: version 1.0.0
--- GUI was built, plotting asa output was enriched.
05/13/09: version 0.5.0
--- some bugs were fixed, asa output was enriched
--- we are almost ready to open
How to run
How to compile
Expression indices calculation
Alternative splicing detection
R-script examples
JETTA GUI
Source Codes
Sample Parameter File
Command Line Application:
WIN32
MAC(i386)
MAC(x86_64)
MAC(ppc)
Linux(i386)
R packages:
Windows
MAC/Linux
GUI:
JETTA GUI
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Affymetrix Human Exon 1.0 Array
Affymetrix Mouse Exon 1.0 Array
10/06/09: JETTA GUI Tutorial
04/23/09: Alternative splicing detection with human liver and muscle samples on Glue Grant arrays
12/03/08: JETTA validation tests
The development and maintenance of JETTA is supported by NIH U54-GM062119 (to R.W.D., W.X. and W.W.), P01-HG000205 (to R.W.D.), and R01-HG004634 (to W.W. and Y.X.)
Lan Lin, Song Liu, Heather Brockway, Junhee Seok, Peng Jiang, Wing Hung Wong and Yi Xing, Using high-density exon arrays to profile gene expression in closely related species, Nucleic Acids Research (in press), 2008
Xing Y, Stoilov P, Kapur K, Han A, Jiang H, Shen S, Black DL, Wong WH. MADS: a new and improved method for analysis of differential alternative splicing by exon-tiling microarrays. RNA. 2008 Aug;14(8):1470-9. Epub 2008 Jun 19.
Kapur, K., Jiang, H., Xing, Y. and Wong, W.H. Cross-hybridization modeling on Affymetrix exon arrays. Bioinformatics(in press), 2008.
Kapur, K., Xing, Y., Ouyang, Z. and Wong, W.H. Exon array assessment of gene expression. Genome Biology, 2007 8(5).
Xing, Y., Kapur, K. and Wong, W.H. Probe selection and expression index computation of affymetrix exon arrays. PLoS ONE, 2006, 1(1).
Glue Grant Data Interpretation Core
dChip
cisGenomeBrowser
Junhee Seok: jseok at stanford dot edu