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GenomicsChIP-seq analysis of H3K4Me3- and H3K27Me3-marked chromatin in mesenchymal stem cells (MSCs), osteoblasts derived from MSCs and the osteosarcoma cell line U2OS
Many DNA-hypermethylated cancer genes are occupied by the polycomb (PcG) repressor complex in embryonic stem cells (ESCs). Their prevalence in the full spectrum of cancers, the exact context of chromatin involved, and their status in adult cell renewal systems are unknown. Using a genome-wide analys...
ORGANISM(S): Homo sapiens 
2012-03-02 | E-GEOD-35573 | biostudies-arrayexpress
TranscriptomicsMaternally deposited germline piRNAs silence the tirant retrotransposon in somatic cells
Transposable elements (TEs), whose propagation can result in severe damage to the host genome, are silenced in the animal gonad by Piwi-interacting RNAs (piRNAs). piRNAs produced in the ovaries are deposited in the embryonic germline and initiate TE repression in the germline progeny. Whether the ma...
ORGANISM(S): Drosophila simulans 
2013-04-09 | E-GEOD-40592 | biostudies-arrayexpress
TranscriptomicsRNA-seq analysis of E. coli BW25113 during exponential growth on M9 minimal medium supplemented with either glucose, xylose or glucose+xylose (glucose exponential phase)
Escherichia coli strain BW25113 carying the plasmid [pBR322 PihfB-mTagBFP PxylA-mRFP1] was grown on minimal M9 medium with either glucose (15 mM), xylose (18 mM), or a mix of glucose (6 mM) and xylose (11 mM). The scope here was to observe transcriptomic differences on glucose versus xylose and to p...
ORGANISM(S): Escherichia coli K-12 
2026-06-02 | E-MTAB-14542 | biostudies-arrayexpress
UnknownRemarkably High Repeat Content in the Genomes of Sparrows: The Importance of Genome Assembly Completeness for Transposable Element Discovery.
Not available
S-EPMC11088854 | biostudies-literature
GenomicsFunctional link between Rad2 and Mediator
In this study, we generate genomic maps of Mediator, Rad2, Pol II, TBP and TFIIH, by ChIP coupled to next generation sequencing technology (ChIP-seq), in wild type strains from Saccharomyces cerevisiae. A related study involving ChIP-chip analysis of Rad2 occupany is also deposited at ArrayExpress ...
ORGANISM(S): Saccharomyces cerevisiae 
2013-12-01 | E-MTAB-1595 | biostudies-arrayexpress
UnknownSubstantial deletion overlap among divergent Arabidopsis genomes revealed by intersection of short reads and tiling arrays.
Not available
S-EPMC2847716 | biostudies-literature
GenomicsChIP-Seq of NSL3 and MBD-R2 in Drosophila melanogaster S2 cells to investigate the function of Non-Specific Lethal (NSL) complex
The major H4K16 acetylase MOF has been found in two complexes, the Male-Specific Lethal (MSL) and the Non-Specific Lethal (NSL) complex. The latter one consists of at least 7 members: NSL1, NSL2, NSL3, MBD-R2, MCRS2, WDS, and MOF. To investigate it's function, we performed genome-wide profiling of N...
ORGANISM(S): Drosophila melanogaster 
2012-06-19 | E-MTAB-1085 | biostudies-arrayexpress
GenomicsChIP-seq profiling of RNA Polymerase II in Drosophila melanogaster S2 cells depleted of the non-specific lethal (NSL) complex
We show that the non-specific lethal (NSL) complex in Drosophila binds to housekeeping genes. Individual ChIP-qPCR experiments of NSL target genes indicated a role of the NSL complex in RNA Polymerase II (Pol II) recruitment to promoters. Consequently, we obtained ChIP-Seq profiles of the Pol-II-sub...
ORGANISM(S): Drosophila melanogaster 
2012-06-19 | E-MTAB-1084 | biostudies-arrayexpress
GenomicsBrg1 Modulates Enhancer Activation and Polycomb-mediated Repression in Mesoderm Differentiation [ChIP-exo]
We investigated the genome-wide occupancy changes in normal and Brg1-deleted mesoderm differentiation of mouse embryonic stem cells of chromatin regulators and histone modifications. ChIP exo for BRG1 in 2 conditions: Day4 THF (Control) and Day4 4OHT (Brg1-deleted). 1-2 replicates per condition.
ORGANISM(S): Mus musculus 
2015-03-01 | E-GEOD-63976 | biostudies-arrayexpress
TranscriptomicsNatural Variation and Timing of Stress Responses Promote and Predict Heterosis
Hybrid plants and animals grow larger and more vigorously than the parents, a common phenomenon known as hybrid vigor or heterosis. Heterosis often correlates with the genetic distance between hybridizing parents, but the mechanism for this is largely unknown. We found that genetic distance was corr...
ORGANISM(S): Arabidopsis thaliana 
2015-05-31 | E-GEOD-51578 | biostudies-arrayexpress
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