Research
Genome adaptation to chemical stress: clues from comparative transcriptomics in Saccharomyces cerevisiae and Candida glabrata
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* Corresponding author: Gaëlle Lelandais gaelle.lelandais@univ-paris-diderot.fr
1 Equipe de Bioinformatique Génomique et Moléculaire, INSERM UMR S726, Université Paris 7, INTS, 6 rue Alexandre Cabanel, 75015 Paris, France
2 Laboratoire de Génétique Moléculaire, CNRS UMR 8541, Ecole Normale Supérieure, 46 rue d'Ulm, 75230 Paris cedex 05, France
3 Plate-forme transcriptome IFR 36, Ecole Normale Supérieure, 46 rue d'Ulm, 75230 Paris cedex 05, France
4 Current address: MTI, Bât. Lamarck, 35 rue Hélène Brion, 75205 Paris Cedex 13, France
Genome Biology 2008, 9:R164 doi:10.1186/gb-2008-9-11-r164
Published: 24 November 2008Additional files
Additional data file 1:
Pearson correlation values between expression measurements obtained for different time points, using orthology relationships between all genes in S. cerevisiae and C. glabrata.
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Additional data file 2:
Genes significantly up- and down-regulated in S. cerevisiae and C. glabrata, with expression measurements.
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Additional data file 3:
Principle of the differential clustering algorithm.
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Additional data file 4:
Different transcriptional modules identified with DCA.
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Additional data file 5:
Genes in each DCA cluster.
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Additional data file 6:
Results obtained with the MatrixREDUCE algorithm.
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Additional data file 7:
Up-regulated genes with their associated regulatory controls (ScYap1p-dependant genes, Cgap1p-dependant genes or other regulatory controls).
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Additional data file 8:
Overview of the methods used in this study.
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Additional data file 9:
Comparative genomic analysis of YREs in yeasts.
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Additional data file 10:
Description of the FLR1 gene, in which the conservation of oxidative stress response deals with the divergence of cis-regulatory sequences and of regulatory network structure.
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Additional data file 11:
Oligonucleotides used to construct the mutated yeast strains shown in Figure 4.
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Additional data file 12:
Mutagenesis of the YRE and CgYRE motifs.
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