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TranscriptomicsRNA-seq reveals differential gene expression in Staphylococcus aureus at single-nucleotide resolution
Staphylococcus aureus is a gram-positive cocci and an important human commensal bacteria and pathogen. S. aureus infections are increasingly difficult to treat because of the emergence of highly resistant MRSA (Methicillin-resistant S. aureus) strains. Here we present a method to study differential...
ORGANISM(S): Staphylococcus aureus 
2013-11-07 | E-GEOD-48896 | biostudies-arrayexpress
GenomicsSynthetic antagonist of a histone reader reveals and targets genes essential for inflammation
Post-translational modifications of histones determines cell lineage- or signal-specific gene expression. Depending on the type and combination of modifications, histones bind to functionally distinct effector proteins ('readers') that control gene activation or silencing. The current pharmacologic...
ORGANISM(S): Mus musculus 
2010-11-10 | E-GEOD-21910 | biostudies-arrayexpress
TranscriptomicsHira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [CATCH-IT]
Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse em...
ORGANISM(S): Mus musculus 
2013-09-30 | E-GEOD-42153 | biostudies-arrayexpress
GenomicsHira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [ChIP-Seq]
Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse em...
ORGANISM(S): Mus musculus 
2013-09-30 | E-GEOD-42152 | biostudies-arrayexpress
TranscriptomicsHira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [RNA-Seq]
Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse em...
ORGANISM(S): Mus musculus 
2013-09-30 | E-GEOD-42154 | biostudies-arrayexpress
GenomicsDistinct factors control histone variant H3.3 localization at specific genomic regions
The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem (ES) cells and neuronal precursor cells. Genome-w...
ORGANISM(S): Mus musculus 
2010-03-04 | E-GEOD-16893 | biostudies-arrayexpress
TranscriptomicsMicroarray analysis of striatal tissue of wild type and Ezh1/Ezh2 dKO mice at 6 weeks, 3 months, and 6 months
Normal brain function critically depends on the interaction between highly specialized neurons that operate within anatomically and functionally distinct brain regions. The fidelity of neuronal specification is contingent upon the robustness of the transcriptional program that supports the neuron ty...
ORGANISM(S): Mus musculus 
2016-07-29 | E-GEOD-84243 | biostudies-arrayexpress
TranscriptomicsThe yeast Snt2 protein helps coordinate the transcriptional response to hydrogen-peroxide mediated oxidative stress (RNA-seq)
Snt2 is a yeast chromatin-interacting protein whose function has not been well characterized, that was recently shown to associate with Ecm5 and the Rpd3 deacetylase. Using chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq), we show that in response to H2O2, Snt2 and Ecm...
ORGANISM(S): Saccharomyces cerevisiae 
2013-07-24 | E-GEOD-42983 | biostudies-arrayexpress
GenomicsGenome-wide maps of chromatin state in medium spiny neurons in the striatum of adult mice
Normal brain function critically depends on the interaction between highly specialized neurons that operate within anatomically and functionally distinct brain regions. The fidelity of neuronal specification is contingent upon the robustness of the transcriptional program that supports the neuron ty...
ORGANISM(S): Mus musculus 
2016-07-29 | E-GEOD-84244 | biostudies-arrayexpress
GenomicsThe yeast Snt2 protein helps coordinate the transcriptional response to hydrogen-peroxide mediated oxidative stress (rapamycin or DMSO)
Snt2 is a yeast chromatin-interacting protein whose function has not been well characterized, that was recently shown to associate with Ecm5 and the Rpd3 deacetylase. Using chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq), we show that in response to H2O2, Snt2 and Ecm...
ORGANISM(S): Saccharomyces cerevisiae 
2013-07-24 | E-GEOD-43001 | biostudies-arrayexpress
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