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TranscriptomicsDNA methylation prevents CTCF-mediated silencing of the oncogene BCL6 in B cell lymphomas
Elevated DNA methylation in the first intronic region of the BCL6 locus in B cell lymphomas enforces transcription of the BCL6 gene Promoter tiling arrays were used to investigate the distribution of DNA methylation near the promoter region of BCL6 locus Comparison of DNA methylation at promoter reg...
ORGANISM(S): Homo sapiens 
2010-08-20 | E-GEOD-22884 | biostudies-arrayexpress
GenomicsDerivation of pre-X inactivation human embryonic stem cells under physiological oxygen concentrations
The presence of two active X chromosomes (XaXa) is a hallmark of the ground state of pluripotency specific to murine embryonic stem cells (ESCs). Human ESCs invariably exhibit signs of X chromosome inactivation (XCI) and are considered developmentally more advanced than their murine counterparts. W...
ORGANISM(S): Homo sapiens 
2010-05-28 | E-GEOD-21141 | biostudies-arrayexpress
GenomicsSmchd1 dependent and independent pathways determine developmental dynamics of CpG island methylation on the inactive X chromosome.
X chromosome inactivation involves multiple levels of chromatin modification, established progressively and in a stepwise manner during early development. The chromosomal protein Smchd1 has recently been shown to play an important role in DNA methylation of CpG islands (CGIs), a late step in the X i...
ORGANISM(S): Mus musculus 
2012-10-15 | E-GEOD-37333 | biostudies-arrayexpress
TranscriptomicsEffect of PIAS1 on gene expression
To study the effect of PIAS1 on transcriptional regulation, we establishedstable PIAS1 shRNA knockdown cells in breast cancer cell line MDA-MB231. By comparing the expression profiles of control vs PIAS1 knockdown cells, we can identify potential PIAS1 target genes involved in breast tumorigenesis. ...
ORGANISM(S): Homo sapiens 
2014-02-06 | E-GEOD-44024 | biostudies-arrayexpress
TranscriptomicsComprehensive, high resolution analysis of cis-acting regulatory networks at the alpha globin locus (array)
We have combined the 4C chromosome conformation capture protocol with high throughput, genome-wide sequence analysis to characterise in full a cis-acting regulatory network at a single locus. In contrast to methods which identify large interacting regions (10-1000kb), the 4C approach provides a comp...
ORGANISM(S): Homo sapiens 
2013-06-06 | E-GEOD-42383 | biostudies-arrayexpress
GenomicsRNA Polymerase II Pausing Can Be Retained or Acquired During Activation of Genes Involved in the Epithelial to Mesenchymal Transition
Promoter-proximal RNA polymerase II (Pol II) pausing is implicated in the regulation of gene transcription. However, the mechanisms of pausing including its dynamics during transcriptional responses remain to be fully understood. We performed global analysis of short capped RNAs and Pol II Chromatin...
ORGANISM(S): Homo sapiens 
2015-03-27 | E-GEOD-67041 | biostudies-arrayexpress
UnknownInfluence of Household Water Filters on Bacteria Growth and Trace Metals in Tap Water of Doha, Qatar.
Not available
S-EPMC5974232 | biostudies-literature
TranscriptomicsLamin binding profiles in the ENCODE regions
A systems understanding of nuclear organization and events is critical for determining how cells divide, differentiate and respond to stimuli and for identifying the causes of diseases. Chromatin remodeling complexes such as SWI/SNF have been implicated in a wide variety of cellular processes includ...
ORGANISM(S): Homo sapiens 
2011-01-10 | E-GEOD-24382 | biostudies-arrayexpress
GenomicsGenome-wide analyses reveal the extent of opportunistic STAT5 binding that does not yield transcriptional activation of neighboring genes.
Signal Transducers and Activators of Transcription (STAT) 5A/B regulate cytokine-inducible genes upon binding to GAS motifs. It is not known what percentage of genes with GAS motifs bind to and are regulated by STAT5. Moreover, it is not clear whether genome-wide STAT5 binding is modulated by its co...
ORGANISM(S): Mus musculus 
2012-01-12 | E-GEOD-34986 | biostudies-arrayexpress
TranscriptomicsHaematopoietic loss of KDM6A impairs cardiac recovery in heart failure via epigenetic reprogramming of myeloid cells (scATAC-SEQ)
Clonal haematopoiesis (CH), the expansion of blood-cell clones carrying acquired mutations, is an independent risk factor for cardiovascular disease. Although mutations in DNMT3A and TET2 are well studied, the cardiovascular consequences of KDM6A mutations remain unclear. KDM6A is an X-linked histon...
ORGANISM(S): Mus musculus 
2026-09-04 | E-MTAB-17569 | biostudies-arrayexpress
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