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GenomicsMutant Huntingtin promotes neuronal death through cell autonomous microglial activation via myeloid lineage- determining factors
Huntington's Disease (HD) is a fatal neurodegenerative disorder caused by an extended polyglutamine repeat in the N-terminus of the huntingtin (Htt) protein. Reactive microglia and elevated cytokine levels are observed in the brains of HD patients, but the extent to which neuroinflammation results f...
ORGANISM(S): Mus musculus 
2014-03-02 | E-GEOD-54443 | biostudies-arrayexpress
TranscriptomicsRNA sequencing of winner and loser hPSCs grown in either separate culture or upon co-culture.
The observation that human Pluripotent Stem Cells (hPSCs) may acquire non-random genetic changes during prolonged culture is a major concern for their use in regenerative medicine and disease modelling. The mechanisms through which genetically variant cells are selected for in culture remain poorly ...
ORGANISM(S): Homo sapiens 
2021-03-18 | E-MTAB-10193 | biostudies-arrayexpress
TranscriptomicsImmune cell subsets and their gene expression profiles from human PBMC isolated by Vacutainer Cell Preparation Tube and standard density gradient
High quality genetic material is an essential pre-requisite when analyzing gene expression using microarray technology. Peripheral blood mononuclear cells (PBMC) are frequently used for genomic analyses, but several factors can affect the integrity of nucleic acids prior to their extraction, includi...
ORGANISM(S): Homo sapiens 
2015-08-28 | E-GEOD-67321 | biostudies-arrayexpress
TranscriptomicsCopper exposures on the endangered delta smelt
The delta smelt (Hypomesus transpacificus) is an endangered pelagic fish species endemic to the Sacramento-San Joaquin estuary, California, and considered an indicator of ecosystem health. The experimental combination of molecular biomarkers with higher level condition indicators may allow for inter...
ORGANISM(S): Hypomesus transpacificus 
2010-08-18 | E-GEOD-23238 | biostudies-arrayexpress
TranscriptomicsControl of Pro-Inflammatory Gene Programs by Regulated Trimethylation and Demethylation of Histone H4K20
Regulation of genes that initiate and amplify inflammatory programs of gene expression is achieved by signal-dependent exchange of co-regulator complexes that function to read, write and erase specific histone modifications linked to transcriptional activation or repression. Here, we provide eviden...
ORGANISM(S): Mus musculus 
2012-07-04 | E-GEOD-39113 | biostudies-arrayexpress
GenomicsDirect GR binding sites potentiate clusters of TF binding across the human genome
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2016-08-25 | E-GEOD-79432 | biostudies-arrayexpress
TranscriptomicsCharacterisation of the AGO2 binding sites in HeLa cell line using eiCLIP
Here we investigate the RNA-binding protein AGO2 in HeLa by using a combination of AGO2 enhanced individual nucleotide resolution UV crosslinking and immunoprecipitation (eiCLIP). We find that 5’ capped RNAs derived from 3’UTRs likely originate from AGO2-mediated cleavage, and most often occur at lo...
ORGANISM(S): Homo sapiens 
2024-09-19 | E-MTAB-12945 | biostudies-arrayexpress
GenomicsNucleosomes are context-specific, H2A.Z modulated barriers to RNA polymerase
Nucleosomes are barriers to transcription in vitro, however, their effects on RNA polymerase in vivo are unknown. Here we describe a simple and general strategy to comprehensively map the positions of elongating and arrested RNA Polymerase II (RNAPII) at nucleotide resolution. Our results suggest th...
ORGANISM(S): Drosophila melanogaster 
2014-03-06 | E-GEOD-49106 | biostudies-arrayexpress
GenomicsDirect GR binding sites potentiate clusters of TF binding across the human genome [6]
The glucocorticoid receptor (GR) binds the human genome at >10,000 sites, but only regulates the expression of hundreds of genes. To determine the functional effect of each site, we measured the glucocorticoid (GC) responsive activity of nearly all GR binding sites (GBSs) captured using chromatin im...
ORGANISM(S): Homo sapiens 
2016-08-25 | E-GEOD-79429 | biostudies-arrayexpress
TranscriptomicsRNA sequencing of HEK293T cells expressing peptide 9J10, a 14-3-3 interacting peptide
We investigated the transcriptome profile of HEK293T cells transfected with a plasmid encoding 9J10, a peptide isolated in a phenotypic screen from a library of peptides derived from bacterial and archaeal genomes. The peptide was identified in a screen for FOXO3a reactivation and has been shown to...
ORGANISM(S): Homo sapiens 
2021-05-28 | E-MTAB-10161 | biostudies-arrayexpress
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