Arabidopsis thaliana - Tiling Array Express

References

To cite the developmental transcriptome data, please, refer to

Laubinger S., Zeller G., Henz S.R., Sachsenberg T., Widmer C.K., Naouar N., Vuylsteke M., Schölkopf B., Rätsch G. and Weigel D. (2008) At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana, Genome Biology 9:R112.

For the abiotic stress data, please, cite

Zeller G., Henz S.R., Widmer C.K., Sachsenberg T., Rätsch G. and Weigel D. and Laubinger, S. (2008) Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole genome tiling arrays, submitted.

Visualizations

Tiling array hybridization intensities, probe set definitions for Arabidopsis genes and segmentations into exonic and background regions are visualized in a genome browser.

Visualizations of gene expression and cross-platform comparisons are available through tileViz.

Supplementary data

Developmental data:

Raw and normalized array data, files containing the results of expression analysis as well as information on transcribed regions as predicted by mSTAD are available for download from our ftp server. Repeat data and definition files for the mapping of tiling probes to annotated gene models are also provided there (ftp server).

Abiotic stress data:

From our ftp server, raw and normalized array data (also in GEO format) are available. We also provide supplemental files with RMA expression values, lists of genes up- or downregulated under stress as well as lists for broad and narrow-response genes. Finally, you will find genome locations of transcriptionally active regions (TARs) there, as well as additional information on TARs, such as differential expression under stress.

Related links

If you want to learn more about mSTAD, the segmentation method used for the detection of novel transcripts, please, have a look at the mSTAD homepage.