Downloads
Input data
- Schizosaccharomyces pombe
The orginal data sets, described in the article of Rustici et al.(1), can be downloaded from the website of the Sanger Institute.
- Imputed data sets
The DTWimpute algorithm(2) that has been used for the estimation of missing expression entries in the orginal data sets can be downloaded from the website of the Technical University of Sofia, branch Plovdiv.
P-value calculation
The p-values for regulation have been calculated as described in the article of de Lichtenberg et al.(3). The p-value matrix that has been created for the set of genes occurring in all 9 experiments can be downloaded from here.
Output data
- List of regulated genes
The list of the 218 significantly regulated genes can be downloaded from here.
- Data sets of regulated genes
The data sets that have been created by extracting the expression profiles of the 218 significantly regulated genes from the complete expression matrices can be downloaded from here.
- Merged data set
The single expression matrix that contains the merged profiles of the 218 genes in 25 fused time points can be downloaded from here. The fused expression profiles can be browsed by GenTχWarper tool(4).
(1) Rustici,G., Mata, J., Kivinen, K., Lio, P., Penkett, C. J., Burns, G., Hayles, J., Brazma, A., Nurse, P., Bähler, J. Periodic gene expression program of the fission yeast cell cycle, Nature Genetics, 36 (2004) 809-817.
(2) Tsiporkova,E. and Boeva,V. Two-pass imputation algorithm for missing value estimation in gene expression time series. Journal of Bioinformatics and Computational Biology, 5 5 (October 2007) 1005-1022.
(3) de Lichtenberg, U., Jensen, L.J., Fausbøll, A., Jensen, T.S., Bork, P., Brunak, S. Comparison of computational methods for the identification of cell cycle-regulated genes. Bioinformatics 21 7 (2004) 1164-1171.
(4) Criel, J. and E. Tsiporkova, E. Gene Time Eχpression Warper: A tool for alignment, template matching and visualization of gene expression time series. Bioinformatics 22 2 (2006) 251-252.