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TranscriptomicsS. pombe oxidative stress response time course
S. pombe cells were challenged with 0.5 mM hydrogen peroxide for various periods of time (0, 10, 30, 60, 120, 180 minutes). Total RNA was isolated at each time point, labeled with Cy3 and hybridized on cDNA microarrays competitively with Cy5 labeled RNA pooled from all 6 samples. A biological replic...
ORGANISM(S): Schizosaccharomyces pombe 
2012-02-22 | E-MTAB-891 | biostudies-arrayexpress
TranscriptomicsComparative xylose metabolism among the ascomycetes C. albicans, S. stipitis and S. cerevisiae
The ascomycetes Saccharomyces cerevisiae, Candida albicans and Scheffersomyces stipitis metabolize the pentose sugar xylose very differently. S. cerevisiae fails to grow on xylose, while C. albicans can grow, and S. stipitis can both grow and ferment xylose to ethanol. However, all three species co...
ORGANISM(S): Candida albicans SC5314 
2013-10-30 | E-GEOD-50476 | biostudies-arrayexpress
TranscriptomicsCell cycle dependent nucleosome occupancy at cohesin binding sites in yeast chromosomes
Nucleosome organization determines local chromatin structure and changes in nucleosome occupancy during the cell cycle are correlated with nuclear functions. We used oligonucleotide tiling arrays to analyze the cell cycle dependence of nucleosome occupancy at cohesin binding sites in yeast chromosom...
ORGANISM(S): Saccharomyces cerevisiae 
2010-05-26 | E-GEOD-8130 | biostudies-arrayexpress
TranscriptomicsTranscriptomic and metabolic responses of Staphylococcus aureus exposed to supra-physiological temperatures
Previous evaluation by different molecular and physiological assays of Staphylococcus aureus (S. aureus) responses to heat shock exposure yielded a still fragmentary view of the mechanisms determining bacterial survival or death at supra-physiological temperatures. This study analyzed diverse facets...
ORGANISM(S): Staphylococcus aureus 
2010-06-19 | E-GEOD-12920 | biostudies-arrayexpress
TranscriptomicsTranslation profiling of Schizosaccharomyces pombe size separated polysome fractions provides data on average numbers of associated ribosomes for most transcripts
To obtain translational profiles for all mRNAs, polysome preparations are separated according to their size using a sucrose gradient and the mRNAs in each fraction are identified and quantified with DNA microarrays. Starting with exponentially growing cells, we analyzed 12 polysome fractions using D...
ORGANISM(S): Schizosaccharomyces pombe 
2007-03-22 | E-TABM-222 | biostudies-arrayexpress
no omics definedTranscription profiling of teicoplanin-susceptible strain of S.aureus and its teicoplanin-resistant derivative
Changes in transcriptome of S. aureus linked with acquisition of teicoplanin resistance and reduced autolysis. Comparison of RNA profiling of the teicoplanin-susceptible parental strain (MRGR3)with its teicoplanin-resistant derivative (14-4).
ORGANISM(S): Staphylococcus aureus 
2007-01-01 | E-MEXP-738 | biostudies-arrayexpress
TranscriptomicsA cost-effective method for double stranded cDNA synthesis for microarray analysis
DNA microarrays are two-dimensional arrangements of specific probes deposited on a substrate that have been widely used in gene expression analysis by measuring mRNA accumulation. The use of this type of microarrays involves the synthesis of cDNA, which has to be double stranded (ds) if the microarr...
ORGANISM(S): Cucumis melo 
2012-03-07 | E-GEOD-30693 | biostudies-arrayexpress
GenomicsThe complete methylome of hematopoietic stem cells and their immediate progeny
Hematopoietic stem cells (HSCs) constitute a rare cell population in bone-marrow and are capable of live-long self-renewal and production of all mature blood cell types. Cell differentiation processes are governed by epigenetic mechanisms whose study during early differentiation steps will provide i...
ORGANISM(S): Mus musculus 
2014-08-25 | E-GEOD-52709 | biostudies-arrayexpress
TranscriptomicsGenome-scale analysis of Staphylococcus aureus reveals host-specific diversification of the core genome.
Staphylococcus aureus causes disease in humans and a wide array of animals. Of note, S. aureus mastitis of ruminants, including cows, sheep and goats, results in major economic losses worldwide. Extensive variation in genome content exists among S. aureus pathogenic clones. However, the genomic vari...
ORGANISM(S): Staphylococcus aureus 
2008-11-18 | E-GEOD-10187 | biostudies-arrayexpress
TranscriptomicsStreptococcus agalactiae genes controlled by the MtaR transcription factor
The purpose of this study was to determine what S. agalactiae genes are under the control of the MtaR regulatory protein. Inactivation of the Streptococcus agalactiae mtaR gene resulted in the downregulation of 11 genes and the upregulation of 1 gene in the mtaR mutant. Genes involved in the uptak...
ORGANISM(S): Streptococcus agalactiae 
2008-10-29 | E-GEOD-13325 | biostudies-arrayexpress
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