Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Global transcriptional response to transient cell wall damage

ABSTRACT: Data processing included: 1. Filtering of those bad quality image spots (these includes alterations on the shape or hybridization) 2. Filtering of low intensity which was done flagging with -50 those spots whose feature intensity was lower in any of both channels than the average of the local background in the corresponding channel for all spots. However, those genes whose feature intensity in one channel was under the limit but in the other channel was 5 times over limit were considered as on-off genes and were not filtered. 3. Filtering of low reproducibility intrachip replicated spots. Normal distribution was created with the value obtained from the formula: log2(Rax1/Rb) which means logarithm (two-based) of one ratio multiplied by the inverse of its replicate. This value for each gene shoud keep between the range of average Â± 3SD. Those genes out of these range are flagged as -25 4. Normalization of ratios was done by Lowess mathematical method. Correction factor was 0.33 This SuperSeries is composed of the following subset Series: GSE960: wild type 0 hours exposure to congo red GSE961: wild type 2 hours exposure to congo red GSE962: wild type 4 hours exposure to congo red GSE963: wild type 6 hours exposure to congo red GSE964: slt2 mutant 4 hours exposure to congo red GSE965: rlm1 mutant 4 hours exposure to congo red GSE966: wild type two hours exposure to zymolyase Keywords: SuperSeries Refer to individual Series

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: CÃ©sar Nombela

PROVIDER: E-GEOD-959 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

The global transcriptional response to transient cell wall damage in Saccharomyces cerevisiae and its regulation by the cell integrity signaling pathway.

García Raúl R Bermejo Clara C Grau Cecilia C Pérez Rosa R Rodríguez-Peña Jose Manuel JM Francois Jean J Nombela César C Arroyo Javier J

The Journal of biological chemistry 20040121 15

In the yeast Saccharomyces cerevisiae, environmental stress conditions that damage the cell wall lead to activation of the so-called "compensatory mechanism," aimed at preserving cell integrity through a remodeling of this extracellular matrix. Here we used DNA microarrays to investigate the molecular basis of this response to two agents that induce transient cell wall damage; namely Congo Red and Zymolyase. Treatment of the cells with these two agents elicited the up-regulation of 132 and 101 g ...[more]

PMID: 14739279

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Dataset Information

Global transcriptional response to transient cell wall damage

Publications

The global transcriptional response to transient cell wall damage in Saccharomyces cerevisiae and its regulation by the cell integrity signaling pathway.

Similar Datasets

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