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TranscriptomicsCell cycle- and chaperone-mediated regulation of H3K56ac incorporation in yeast
Acetylation of histone H3 lysine 56 is a covalent modification best-known as a mark of newly-replicated chromatin, but has also been linked to replication-independent histone replacement. Here, we measured H3K56ac levels at single-nucleosome resolution in asynchronously growing yeast cultures, as w...
ORGANISM(S): Saccharomyces cerevisiae 
2008-10-03 | E-GEOD-12822 | biostudies-arrayexpress
TranscriptomicsIdentification of histone codes and crosstalk in fission yeast
Aims: To map histone modifications with unprecedented resolution both globally and locus-specifically, and to link modification patterns to gene expression. Materials & methods: Using correlations between quantitative mass spectrometry and chromatin immunoprecipitation/microarray analyses, we have m...
ORGANISM(S): Schizosaccharomyces pombe 
2011-01-05 | E-GEOD-11511 | biostudies-arrayexpress
GenomicsAcetylated histone H3K56 interacts with Oct4 to promote mouse embryonic stem cell pluripotency
The presence of acetylated histone H3K56 in human embryonic stem cells (ESCs) correlates positively with the binding of Nanog, Sox2 and Oct4 (NSO) transcription factors at their target gene promoters. However, the function of H3K56ac there has been unclear. We now report that Oct4 interacts with K56...
ORGANISM(S): Mus musculus 
2013-06-25 | E-GEOD-47387 | biostudies-arrayexpress
TranscriptomicsThe Rpd3 Core Complex is a Chromatin Stabilization Module
The S. cerevisiae Rpd3 large (Rpd3L) and small (Rpd3S) histone deacetylase (HDAC) complexes are prototypes for understanding transcriptional repression in eukaryotes [1]. The current view is that they function by deacetylating chromatin, thereby limiting accessibility of transcriptional factors to t...
ORGANISM(S): Saccharomyces cerevisiae 
2012-01-01 | E-GEOD-33829 | biostudies-arrayexpress
TranscriptomicsHistone H3 lysine 56 acetylation is linked to the core transcriptional network in human embryonic stem cells
Lysine 56 acetylation in the helical core of histone H3 opens yeast chromatin and enables histone gene transcription, DNA replication, DNA repair, and prevents epigenetic silencing. While K56Ac is globally abundant in yeast and flies its presence has been uncertain in mammals. We show here using mas...
ORGANISM(S): Homo sapiens 
2009-02-09 | E-GEOD-14749 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation of yeast using anti-H3C and anti-K56 antibodies
Chromatin immunoprecipitation DNA by H3 K56 acetylation antibody
ORGANISM(S): Saccharomyces cerevisiae 
2007-09-28 | E-MEXP-1248 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human late passage hiPSCs (pluripotent stem cells)
Detailed analysis comparing induced pluripotent stem cells revealed functional gene expression differences to hESCs that are changed with long term passaging. We used microarrays to detail the changes that are made throughout passaging to hiPSC lines. Experiment Overall Design: hiPSC lines were harv...
ORGANISM(S): Homo sapiens 
2009-07-19 | E-GEOD-16654 | biostudies-arrayexpress
GenomicsA Study of the Genetic Causes of Complex Pediatric Disorders

The Center for Applied Genomics (CAG) at the Children's Hospital of Philadelphia (CHOP) is a high-throughput, highly automated genotyping and sequencing facility equipped with state-of-the-art genotyping and sequencing platforms. Children who are treated at the Children's Hospital Healthc...

phs000490.v1.p1 | EGA
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