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TranscriptomicsGene Expression Kinetics
We have taken five different time points of a Yeast culture in exponential grow in rich medium, each one elapsed ten minutes from de previous one (from OD600 0.36 to 0.47). Then, for each time point we have measured the transcription rates (TR) and mRNA amounts (RA) for all the genes using the Genom...
ORGANISM(S): Saccharomyces cerevisiae 
2010-03-05 | E-GEOD-11521 | biostudies-arrayexpress
TranscriptomicsWidespread Co-translational RNA Decay Reveals Ribosome Dynamics
It is generally assumed that mRNAs undergoing translation are protected from decay. Here, we show that mRNAs are, in fact, co-translationally degraded. This is a widespread and conserved process affecting most genes, where 5′–3′ transcript degradation follows the last translating ribosome, producing...
ORGANISM(S): Schizosaccharomyces pombe 
2015-06-04 | E-GEOD-63120 | biostudies-arrayexpress
TranscriptomicsSaccharomyces cerevisiae Transcript Isoform mapping
Extensive transcriptional heterogeneity revealed by isoform profiling Application of TIF-Seq (Transcript IsoForm Sequencing) to S.cerevisiae. The method was applied to simultaneously identify the 5' capped mRNA transcription start site and the 3' polyadenylation site in different conditions: WT cell...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-06 | E-GEOD-39128 | biostudies-arrayexpress
TranscriptomicsGRO analysis of rap1-sil, tpk1 & tpk2.
GRO (Genomic run-on) experiments with different mutants that affect to the accumulation of non active RNA pol II along the yeast genome. Keywords: Genomic run-on GRO There are 4 different strains: rap1-sil (without the silencing domain), RAP1(both from Graham I.R. et al 1999) and tpk1 & tpk2 mutant...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-24 | E-GEOD-14080 | biostudies-arrayexpress
TranscriptomicsRPCC analysis of rap1-sil, tpk1 & tpk2.
RPCC (RNA pol II ChIP-on-chip) experiments with different mutants that affect to the accumulation of non active RNA pol II along the yeast genome. Keywords: ChIP-chip There are 4 different strains: rap1-sil (without the silencing domain), RAP1 (both from Graham I.R. et al 1999) and tpk1 & tpk2 muta...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-24 | E-GEOD-14077 | biostudies-arrayexpress
TranscriptomicsRNA pol II ChIP on chip (RPCC)
Adaptation of the ChIP-on-chip protocol, to calculate genomic transcription rates in S. cerevisiae. Keywords: ChIP-chip There are 3 different experimental conditions: -Yeast cell growing exponentially in YPD. -Yeast cell stopped after 2 h of changing them to YPGal. -Yeast cell growing exponentiall...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-24 | E-GEOD-14060 | biostudies-arrayexpress
TranscriptomicsDynamic remodeling of histone modifications in response to osmotic stress in Saccharomyces cerevisiae
Specific histone modifications play important roles in chromatin functions such as activation or repression of gene transcription. These participation must occur as a dynamic process, however, most of histone modification state maps reported to date only provide static pictures linking certain modif...
ORGANISM(S): Saccharomyces cerevisiae 
2014-04-06 | E-GEOD-41587 | biostudies-arrayexpress
TranscriptomicsYeast mRNA decay analysis after addition of 3 & 10 µ/mL thiolutin
Time course after the addition of the transcriptional inhibitor thiolutin at 3 and 10 µg/mL to an exponential growing culture of S. cerevisiae in YPD. Total RNA from BQS252 yeast strain (Mat a, ura3-52 derived from FY1679) growing in exponential phase in YPD was extracted at 30 minutes after thiolu...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-25 | E-GEOD-8629 | biostudies-arrayexpress
TranscriptomicsYeast mRNA decay analysis after addition of 3 µ/mL thiolutin
Time course after the addition of the transcriptional inhibitor thiolutin at 3µg/mL to an exponential growing culture of S. cerevisiae in YPD. Total RNA from BQS252 yeast strain (Mat a, ura 3-52 derived from FY1679) growing in exponential phase in YPD was extracted at different times after thioluti...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-25 | E-GEOD-7261 | biostudies-arrayexpress
TranscriptomicsSaccharomyces cerevisiae 3' poly(A) site mapping
The use of alternative polyadenylation sites is common and affects the post-transcriptional fate of mRNA, including its stability, localization, and translation. Here we present a method for genome-wide and strand-specific mapping of poly(A) sites and quantification of RNA levels at unprecedented ef...
ORGANISM(S): Saccharomyces cerevisiae 
2013-01-10 | E-GEOD-40110 | biostudies-arrayexpress
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