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TranscriptomicsSub1 occupancy in yeast cells in exponential growth condition
A genome-wide location analysis by ChIP on chip of the gene occupancy by Sub1 was undertaken to define the gene targets of Sub1 in vivo. Chromatin immunoprecipitation (ChIP) assays were performed on epitope-tagged Sub1-3HA cross-linked chromatin from exponentially growing cells. Immunopurified DNA a...
ORGANISM(S): Saccharomyces cerevisiae 
2009-08-27 | E-GEOD-11054 | biostudies-arrayexpress
GenomicsZelda overcomes the high intrinsic nucleosome barrier at enhancers during Drosophila zygotic genome activation
A central question in biology is how enhancers are made accessible. The Drosophila embryo is a good model system to study this question as the gene regulatory networks regulating early developmental events have been well characterized. Zelda (Zld) is a uniformly distributed transcription factor (TF)...
ORGANISM(S): Drosophila melanogaster 
2015-08-21 | E-GEOD-65441 | biostudies-arrayexpress
ProteomicsQuantitative proteomic profiling of Arabidopsis nuclei reveals accumulation of nucleolar proteins after a prolonged heat stress
Heat stress (HS) impacts the nuclear proteome and, subsequently, protein activities in the nucleoplasm and/or different nuclear compartments. In Arabidopsis thaliana, a short exposure to 37°C leads to the loss of the standard tripartite architecture of the nucleolus, the most prominent nuclear subst...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2024-10-17 | PXD045038 | Pride
Nanolc-msms Heat stress Nucleolus Nucleus 
GenomicsAllele-specific maps of RNA polymerase II phosphorylated at serine 5 in mouse cultured hybrid cells and mouse hybrid brain
We report the application of single-molecule-based sequencing technology for high-throughput profiling of RNA polymerase II phosphorylated at serine 5 (PolII-S5p; the transcription initiation form) in female mouse cultured hybrid cells and female hybrid brain derived from mouse systems with skewed X...
ORGANISM(S): Mus musculus x Mus spretus 
2013-02-15 | E-GEOD-44255 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of wild type, fixJ, fixK and fixK-like mutant strains of Sinorhizobium meliloti cultured at different oxygen levels
Comparative transcriptome analysis in various oxygen concentrations of wild type and fixJ mutant strains of Sinorhizobium meliloti.
ORGANISM(S): Sinorhizobium meliloti 
2006-08-10 | E-TABM-121 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of wild type and transcriptional regulator mutant strains of Sinorhizobium meliloti
Comparative transcriptome analysis between a Sinorhizobium meliloti wild-type strain and different mutants deficient for transcriptional regulators.
ORGANISM(S): Sinorhizobium meliloti 
2006-08-10 | E-TABM-122 | biostudies-arrayexpress
GenomicsSpt6 regulates intragenic and antisense transcription, nucleosome positioning, and histone modifications genome-wide in fission yeast [Mnase-seq]
Spt6 is a highly conserved histone chaperone that interacts directly with both RNA polymerase II and histones to regulate gene expression. To gain a comprehensive understanding of the requirements for this critical factor, we have performed genome-wide analyses of transcription, chromatin structure...
ORGANISM(S): Schizosaccharomyces pombe 
2013-10-09 | E-GEOD-49572 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of procyclic Trypanosoma brucei cultured at 27oC or under heat shock stress conditions at 41oC
Procyclic trypanosomes (strain 427 lister) were grown in culture under standard conditions at 27ºC in SDM79 medium with 10% foetal bovine serume (Brun and Schnenberger, 1979), in a gazed incubator (5% CO2). Logarithmically growing procyclic cells (at about 5*10^6 cells/ml, at 27°C) were added to o...
ORGANISM(S): Trypanosoma brucei 
2008-09-10 | E-MEXP-1476 | biostudies-arrayexpress
TranscriptomicsWild-type Lister 427 Bloodstream-form polysome profiles with ZC3H32 knock-down
Ran from polysomes of Lister 427 bloodstream forms, wild-type and a cell line with a double knockout and inducible ZC3H32, grown without tetracycline.
ORGANISM(S): Trypanosoma brucei 
2017-11-24 | E-MTAB-4558 | biostudies-arrayexpress
TranscriptomicsTranscription profiling by array of rat cortex regions
The neocortex of the mammalian brain is comprised by six distinct layers with neuronal subtypes that appear indistinguishable from one cortical area to the next. Correspondingly, global gene expression seems to be almost identical across the cerebral cortex and only a few genes have so far been repo...
ORGANISM(S): Rattus norvegicus 
2010-12-31 | E-TABM-1019 | biostudies-arrayexpress
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