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GenomicsGenome-wide location analysis of BMP (SMAD1) in mouse erythroid progenitors co-occupted with lineage specific regulators (GATA1, GATA2)
Lineage regulators direct BMP and Wnt pathways to cell-specific programs during differentiation and regeneration Mouse G1E or G1ER cells were cross-linked with formaldehyde for 20 min. DNA was enriched by chromatin immunoprecipitation (ChIP) and analyzed by Solexa sequencing. A sample of whole cell...
ORGANISM(S): Mus musculus 
2011-10-07 | E-GEOD-29193 | biostudies-arrayexpress
GenomicsGenome-wide location analysis of WNT (Tcf7l2) and BMP (SMAD1) in human hematopoeitic cell lines co-occupied with lineage specific regulators (GATA1, GATA2, CEBPA)
Lineage regulators direct BMP and Wnt pathways to cell-specific programs during differentiation and regeneration. This represents the human ChIP-seq portion of this dataset on leukemia cell lines. Human hematopoietic cells were cross-linked with formaldehyde for 20 min. DNA was enriched by chromatin...
ORGANISM(S): Homo sapiens 
2011-10-07 | E-GEOD-29195 | biostudies-arrayexpress
GenomicsGenome-wide location analysis of WNT (Tcf7l2) and BMP (SMAD1) in human hematopoeitic progenitors co-occupied with lineage specific regulators (GATA1, GATA2)
Lineage regulators direct BMP and Wnt pathways to cell-specific programs during differentiation and regeneration. This represents the human CD34 ChIP-seq portion of this dataset. Human hematopoietic cells were cross-linked with formaldehyde for 20 min. DNA was enriched by chromatin immunoprecipitati...
ORGANISM(S): Homo sapiens 
2011-10-07 | E-GEOD-29194 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation of fission yeast to identify topoisomerase I and II activity
Eukaryotic topoisomerase I and II relax DNA and are key components in the processes of DNA replication, transcription and genome stability. It is not clear, however, how their activity controls epigenetic states across an entire eukaryotic genome. Using the fission yeast model Schizosaccharomyces po...
ORGANISM(S): Schizosaccharomyces pombe 
2010-07-02 | E-MEXP-1850 | biostudies-arrayexpress
TranscriptomicsA role for programmed cell death in the microbial loop
The microbial loop is the conventional model by which nutrients and minerals are recycled in aquatic eco-systems. Biochemical pathways in different organisms become metabolically inter-connected such that nutrients are utilized, processed, released and re-utilized by others. The result is that unrel...
ORGANISM(S): Halobacterium sp. NRC-1 
2013-05-08 | E-GEOD-45752 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation to identify Ino80 binding sites in yeast following phosphate startvation
ChIP on CHIP analysis were performed to analyse the direct involvement of Ino80 in the regulation of the phosphate responsive and nucleotide metabolism genes upon phosphate starvation: We immunoprecipitated Ino80-bound chromatin fragments after formaldehyde crosslinking from cells grown in minimal m...
ORGANISM(S): Schizosaccharomyces pombe 
2009-12-14 | E-MEXP-2284 | biostudies-arrayexpress
GenomicsWhole-genome mapping of MEIS1, TET1, H3K4me2 and H3K27ac in P19.6 mouse embryonal carcinoma cells and P19.6 cells treated for 48 hours with all-trans retinoic acid
Enhancers are developmentally-controlled transcriptional regulatory regions whose activities are modulated through histone modifications or histone variant deposition. Here, we show by genome-wide mapping that the newly discovered DNA modification 5-hydroxymethylcytosine (5hmC) is dynamically associ...
ORGANISM(S): Mus musculus 
2012-06-04 | E-GEOD-33067 | biostudies-arrayexpress
GenomicsNext Generation Sequencing Analysis of Wild Type and Rfx2-/- Testicular Transcriptomes [ChIP-Seq]
Purpose: This study was carried out to determine the consequences of the Rfx2-/- genotype on spermatogenesis in the mouse Methods: DNA was extracted from decapsulated testes of 21 day old mice. ChIP sequencing was used to determine the binding sites of RFX2. Results: ChIP-Seq analysis identified ~88...
ORGANISM(S): Mus musculus 
2015-11-02 | E-GEOD-68282 | biostudies-arrayexpress
TranscriptomicsRole of Fft3 in nuclear organization [DamID-chip, ChIP-chip]
In eukaryotic cells, local chromatin structure and chromatin organization in the nucleus both influence transcriptional regulation. At the local level, the Fun30 chromatin remodeler Fft3 is essential for maintaining proper chromatin structure at centromeres and subtelomeres in fission yeast. Using g...
ORGANISM(S): Schizosaccharomyces pombe 
2015-03-02 | E-GEOD-47464 | biostudies-arrayexpress
GenomicsGenome-wide mapping of 5-hydroxymethylcytosine (5hmC) during differentiation of P19.6 and 3T3-L1 cells
Enhancers are developmentally-controlled transcriptional regulatory regions whose activities are modulated through histone modifications or histone variant deposition. Here, we show by genome-wide mapping that the newly discovered DNA modification 5-hydroxymethylcytosine (5hmC) is dynamically associ...
ORGANISM(S): Mus musculus 
2012-06-04 | E-GEOD-38407 | biostudies-arrayexpress
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