Supplemental material for O. Alter and G. H. Golub, "Reconstructing the Pathways of a Cellular System from Genome-Scale Signals Using Matrix and Tensor Computations," Proceedings of the National Academy of Sciences 102 (49), pp. 17559–17564 (December 2005).
A PDF format file, readable by Adobe Acrobat Reader.
- PNAS_2005.pdf
A PDF format file, readable by Adobe Acrobat Reader.
- PNAS_2005_Appendix.pdf
Mathematica 5.2 code files, executable by Mathematica 5.2 and readable by the
freely available MathReader.
PDF format files, readable by Adobe Acrobat Reader.
Tab-delimited text format files, readable by both Mathematica and Microsoft Excel.
Yeast RNA Expression Dataset
- Reproduced from P. T. Spellman, G. Sherlock, M. Q. Zhang, V. R. Iyer, K. Anders, M. B. Eisen, P. O. Brown, D. Botstein and B. Futcher, "Comprehensive Identification of Cell Cycle-Regulated Genes of the Yeast Saccharomyces cerevisiae by Microarray Hybridization,"
Molecular Biology of the Cell 9 (12), pp. 3273–3297 (December 1998).
Classification List of Yeast Cell Cycle- and Pheromone-Regulated Genes
- Reproduced from P. T. Spellman, G. Sherlock, M. Q. Zhang, V. R. Iyer, K. Anders, M. B. Eisen, P. O. Brown, D. Botstein and B. Futcher, "Comprehensive Identification of Cell Cycle-Regulated Genes of the Yeast Saccharomyces cerevisiae by Microarray Hybridization,"
Molecular Biology of the Cell 9 (12), pp. 3273–3297 (December 1998);
and from C. J. Roberts, B. Nelson, M. J. Marton, R. Stoughton, M. R. Meyer, H. A. Bennett, Y. D. He, H. Dai, W. L. Walker, T. R. Hughes, M. Tyers, C. Boone and S. H. Friend, "Signaling and Circuitry of Multiple MAPK Pathways Revealed by a Matrix of Global Gene Expression Profiles," Science 287 (5454), pp. 873–880 (February 2000).
Yeast Proteins' DNA-Binding Datasets
- Reproduced from T. I. Lee, N. J. Rinaldi, F. Robert, D. T. Odom, Z. Bar-Joseph, G. K. Gerber, N. M. Hannett, C. T. Harbison, C. M. Thompson, I. Simon, J. Zeitlinger E. G. Jennings, H. L. Murray, D. B. Gordon, B. Ren, J. J. Wyrick, J. B. Tagne, T. L. Volkert, E. Fraenkel, D. K. Gifford and R. A. Young,
"Transcriptional Regulatory Networks in Saccharomyces cerevisiae,"
Science 298 (5594), pp. 799–804 (October 2002).