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GenomicsA compendium of nucleosome and transcript profiles reveals determinants of chromatin architecture and transcription [Nuc-Seq]
Nucleosomes in all eukaryotes examined to date adopt a characteristic architecture within genes and play fundamental roles in regulating transcription, yet the identity and precise roles of many of the trans-acting factors responsible for the establishment and maintenance of this organization remain...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-44878 | biostudies-arrayexpress
TranscriptomicsA compendium of nucleosome and transcript profiles reveals determinants of chromatin architecture and transcription
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-44879 | biostudies-arrayexpress
TranscriptomicsA compendium of nucleosome and transcript profiles reveals determinants of chromatin architecture and transcription [nucleosome profiling]
Nucleosomes in all eukaryotes examined to date adopt a characteristic architecture within genes and play fundamental roles in regulating transcription, yet the identity and precise roles of many of the trans-acting factors responsible for the establishment and maintenance of this organization remain...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-44877 | biostudies-arrayexpress
TranscriptomicsA compendium of nucleosome and transcript profiles reveals determinants of chromatin architecture and transcription [transcript profiling]
Nucleosomes in all eukaryotes examined to date adopt a characteristic architecture within genes and play fundamental roles in regulating transcription, yet the identity and precise roles of many of the trans-acting factors responsible for the establishment and maintenance of this organization remain...
ORGANISM(S): Saccharomyces cerevisiae 
2013-05-22 | E-GEOD-44876 | biostudies-arrayexpress
GenomicsNucleosome positioning for 4 yeast species
We describe the genome-wide nucleosome profiles of four related yeast species. All species display the same global organization features first described in S. cerevisiae: a stereotypical nucleosome organization along genes, and the classification of promoters into these which contain or lack a prono...
ORGANISM(S): Saccharomyces cerevisiae 
2011-12-09 | E-GEOD-23577 | biostudies-arrayexpress
GenomicsNucleosome repositioning-coupled expression divergence between species
We describe the genome-wide nucleosome profiles for S. bayanus under standard conditions Nucleosomes from S. bayanus was isolated and sequenced using the Illumina GAII platform.
ORGANISM(S): Saccharomyces bayanus 
2011-11-10 | E-GEOD-24356 | biostudies-arrayexpress
TranscriptomicsEffects of the Paf1 complex and histone modifications on snoRNA 3'-end formation reveal broad and locus-specific regulation.
High-density tiling arrays were used to compare transcriptional profiles between the paf1 deletion strain and a wild-type reference strain. This included assessment of signal within ORFs, as well as read-through transcription associated with each of the snoRNAs annotated in SGD. For the latter, hybr...
ORGANISM(S): Saccharomyces cerevisiae 
2012-10-26 | E-MTAB-1342 | biostudies-arrayexpress
TranscriptomicsA library of yeast transcription factor motifs
The sequence specificity of DNA-binding proteins is the primary mechanism by which the cell recognizes genomic features. Here, we describe systematic determination of yeast transcription factor DNA-binding specificities. We obtained binding specificities for 112 DNA-binding proteins representing 19 ...
ORGANISM(S): Saccharomyces cerevisiae 
2008-12-26 | E-GEOD-12349 | biostudies-arrayexpress
TranscriptomicsDIP-chip from Cbf1, Leu3, Pho2, Pho4, Rap1, Rox1, and Swi5
DNA Immunoprecipitation was performed using purified, naked, genomic DNA and purified recombinant DNA binding domains for S. cerevisiae transcription factors (Cbf1, Leu3, Pho2, Pho4, Rap1, Rox1, and Swi5) and then competitively hybridized against input DNA on NimbleGen 385k whole-genome, 32bp, tilin...
ORGANISM(S): Saccharomyces cerevisiae 
2010-05-15 | E-GEOD-13751 | biostudies-arrayexpress
TranscriptomicsTranscriptional profiling by array of yeast to identify genes inhibiting mitochondrial translation as a therapeutic strategy for human acute myeloid leukemia
Haplo-insufficiency profiling followed by Gene-set enrichment analysis of sensitive strains was conducted in yeast treated with tigecycline. This revealed significant enrichment of genes involved in mitochondrial translation, similar to that seen with the known mitochondrial translation inhibitors ...
ORGANISM(S): Saccharomyces cerevisiae 
2011-11-01 | E-MTAB-814 | biostudies-arrayexpress
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