Sort   by:  
 Page size 
GenomicsGenome-wide localization of the RNA polymerase III transcription machinery in human cells
To characterize the pol III transcriptome in actively growing human cells, we used MR90hTeIrt lung fibroblasts, which are immortal but not transformed, with an intact Rb pathway. After formaldehyde cross-linking, chromatin was extracted and submitted to immunoprecipitation. To identify actively tr...
ORGANISM(S): Homo sapiens 
2010-02-11 | E-GEOD-18184 | biostudies-arrayexpress
GenomicsGenomic Study of RNA Polymerase II and III SNAPc-Bound Promoters Reveals a Gene Transcribed by both Enzymes and a Broad Use of Common Activators
SNAPc-dependent promoters are unique among cellular promoters in being very similar to each other, even though some of them recruit RNA polymerase II and other RNA polymerase III. We have examined all SNAPc-bound promoters present in the human genome. We find that there is a surprisingly small numbe...
ORGANISM(S): Homo sapiens 
2012-11-22 | E-GEOD-38303 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse liver cells during the circadian cycle at 4 hour time resolution
Cyclic regulatory systems are ubiquitous in cells and tissues. In the liver rhythms in mRNA expression are determined by the homeostatic regulation that operates on daily circumstances. In particular the specific response to nutrients, as well as systemic and peripheral circadian oscillators, contri...
ORGANISM(S): Mus musculus 
2012-12-06 | E-GEOD-35789 | biostudies-arrayexpress
GenomicsA Multiplicity of Factors Contributes to Selective RNA polymerase III occupancy of a Subset of RNA polymerase III Genes in Mouse Liver
The genomic loci occupied by RNA polymerase (pol) III have been characterized in human culture cells by genome-wide chromatin immunoprecipitation experiments followed by deep sequencing (ChIP-Seq). These studies have in particular shown that only about 40 % of the annotated 622 human tRNA genes and...
ORGANISM(S): Mus musculus 
2012-01-19 | E-GEOD-33421 | biostudies-arrayexpress
GenomicsGenome-wide profiles of RNA polymerase II (Pol 2) DNA occupancy and the histone modifications H3K4me3 and H3K36me3 around the circadian cycle
To understand the transcriptional basis of circadian rhythms in mouse liver, we generated genome-wide profiles of RNA polymerase II (Pol 2) DNA occupancy and the histone modifications H3K4me3 and H3K36me3 around the circadian cycle. We found that Pol 2 occupancy at promoters and in gene bodies cycle...
ORGANISM(S): Mus musculus 
2012-12-06 | E-GEOD-35788 | biostudies-arrayexpress
GenomicsDynamics of SREBP1 binding to DNA in mouse liver
To systematically understand how the circadian clock and the nutrient-driven rhythm integrate to regulate SREBP1 activity, we evaluated genome-wide the binding of SREBP1 to its targets along the day in wild-type (WT) C57BL/6mice. The recruitment of SREBP1 to the DNA showed a highly circadian behavio...
ORGANISM(S): Mus musculus 
2014-03-10 | E-GEOD-48375 | biostudies-arrayexpress
GenomicsQuantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization.
Purpose: Description of a spike-adjusting-method (SAM) to normalize ChIP-seq data . Methods: We performed ChIP-seq of POLR3D and POLR2B with mouse liver supplemented with 2.5% of human DNA. Human DNA will be used as an internal control for ChIP-seq quantification. Results: We show that using the SA...
ORGANISM(S): Mus musculus 
2014-04-02 | E-GEOD-52049 | biostudies-arrayexpress
Sort   by:  
 Page size