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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 [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
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
TranscriptomicsVariation in homeodomain DNA-binding revealed by high-resolution analysis of sequence preferences
Most homeodomains are unique within a genome, yet many are highly conserved across vast evolutionary distances, implying strong selection on their precise DNA-binding specificities. We determined the binding preferences of the majority (168) of mouse homeodomains to all possible 8-base sequences, re...
ORGANISM(S): Mus musculus 
2010-06-26 | E-GEOD-11239 | biostudies-arrayexpress
TranscriptomicsHighly parallel identification of sequence preferences for eukaryotic C2H2 zinc finger domains using a bacterial 1-hybrid assay
The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc...
ORGANISM(S): synthetic construct 
2015-02-17 | E-GEOD-52521 | biostudies-arrayexpress
TranscriptomicsEvaluation of DNA-binding preferences of C2H2 zinc finger domains by PBM
The largest and most diverse class of eukaryotic transcription factors contain Cys2-His2 zinc fingers (C2H2-ZFs), each of which typically binds a DNA nucleotide triplet within a larger binding site. Frequent recombination and diversification of their DNA-contacting residues suggests that these zinc...
ORGANISM(S): synthetic construct 
2015-02-17 | E-GEOD-52520 | biostudies-arrayexpress
TranscriptomicsLarge-scale characterization of DNA binding landscape of eukaryotic C2H2 zinc fingers
This SuperSeries is composed of the SubSeries listed below. Cys2-His2 zinc finger (C2H2-ZF) proteins represent the largest class of putative human transcription factors (TFs). However, it is unknown whether most C2H2-ZFs even bind DNA, or what sequences they bind. Using a combination of bacterial...
ORGANISM(S): synthetic construct 
2015-02-17 | E-GEOD-52523 | 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
TranscriptomicsTranscription profiling of yeast deletion strain and the isogenic wild type strainA
A deletion strain and the isogenic wild-type strain were compared to each other on our custom microarray.
ORGANISM(S): Saccharomyces cerevisiae 
2003-07-15 | E-MEXP-12 | biostudies-arrayexpress
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