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GenomicsAnalysis of H3K9 trimethylation in unstimulated and stimulated dendritic cells and fibroblasts
The distribution of H3K9me3 was analyzed in order to investigate the influence of H3K9me3 levels surrounding candidate enhancers and other cis-regulatory elements. ChIP-seq for H3K9me3 and input DNA controls, from 2 cell types (DCs & fibroblasts) under 2 conditions (unstimulated & stimulated)
ORGANISM(S): Mus musculus 
2012-11-19 | E-GEOD-32377 | biostudies-arrayexpress
GenomicsAnalysis of JmjD2d-bound regions in unstimulated and stimulated dendritic cells
To examine JmjD2d-binding, ChIP was performed using monoclonal antibodies specific for JmjD2d, or for the JmjN domain of all JmjD2-family members. ChIP-seq for JmjD2d, Jmjd2-family, and input DNA controls, from dendritic cells under 2 conditions (unstimulated & stimulated)
ORGANISM(S): Mus musculus 
2012-11-19 | E-GEOD-32379 | biostudies-arrayexpress
GenomicsIdentification of candidate enhancer elements in unstimulated and stimulated dendritic cells and fibroblasts
To identify candidate enhancer elements we analyzed the distribution of two histone modifications associated with enhancers - H3K4me1 and H3K27ac - and one histone modification associated with active transcription - H4 acetylation. ChIP-seq for H3K4me1, H3K27ac and H4ac, and input DNA controls, from...
ORGANISM(S): Mus musculus 
2012-11-19 | E-GEOD-32380 | biostudies-arrayexpress
TranscriptomicsJmjD2d-dependence of LPS-induced genes
In dendritic cells, expression of the H3K9me3 demethylase JmjD2d is upregulated by LPS stimulation. To identify genes whose induction by LPS depends on JmjD2d activity, we performed a microarray analysis of wild-type and JmjD2d-knockdown dendritic cells, before and after stimulation with LPS. RNA w...
ORGANISM(S): Mus musculus 
2012-11-19 | E-GEOD-32255 | biostudies-arrayexpress
TranscriptomicsTrap-80-dependence of TNF-alpha-induced genes
In fibroblasts, p65-dependent genes can be sub-divided, depending on whether they are Trap-80-dependent or -independent. To examine the generality of this grouping, we performed a microarray analysis of wild-type and Trap-80 knock-down fibroblasts, before and after stimulation of NF-kappaB activity...
ORGANISM(S): Mus musculus 
2010-04-09 | E-GEOD-12697 | biostudies-arrayexpress
GenomicsChIP-Seq of fly Schneider S2 cells to investigate CID islands
The centromere-specific Histone H3-variant CENH3 (also known as CENP-A) is considered to be an epigenetic mark for establishment and propagation of centromere identity. Pulse-induction of CENH3 (Drosophila CID) in Schneider S2 cells incorporates into noncentromeric regions and generates CID islands ...
ORGANISM(S): Drosophila melanogaster 
2011-07-15 | E-MTAB-652 | biostudies-arrayexpress
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