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TranscriptomicssiRNA of mouse undifferentiated Dicer -/- (27H10) embryonic stem cells
We have analyzed the transcript expression levels in Dicer knock-out embryonic stem (ES) cells 24 hours after transfection with either control siRNA agains Renilla luciferase or miRNA Mimics (Dharmacon) of mmu-miR-290 cluster members in order to identify primary targets of miR-290 cluster miRNAs. Ex...
ORGANISM(S): Mus musculus 
2008-06-16 | E-GEOD-8503 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse undifferentiated Dicer +/- (D4) and Dicer -/- (27H10) embryonic cell lines
We have analyzed the transcript expression levels in Dicer heterozygous and Dicer knock-out embryonic stem (ES) cells in order to identify which transcripts are regulated by RNAi pathway in mouse ES cells. Experiment Overall Design: Two cell lines were analysed in an undifferentiated state. Triplic...
ORGANISM(S): Mus musculus 
2008-06-15 | E-GEOD-7141 | biostudies-arrayexpress
TranscriptomicsSingle nuclei chromatin profiles of midbrain from genetically distinct mouse strains reveal cell identity transcription factors and cell type-specific gene regulatory variation
Here we report 20 658 single nuclei chromatin accessibility profiles of ventral midbrain cell types from two genetically diverse and commonly used mouse strains, C57BL6/J and A/J. In total we identify over 260 000 unique accessible sites. The distinct chromatin profiles are consistent with gene expr...
ORGANISM(S): Mus musculus 
2022-01-14 | E-MTAB-9225 | biostudies-arrayexpress
GenomicsIntegrated analysis of transcript level regulation of metabolism during human adipocyte differentiation [ChIP-Seq]
Here, we have focused on studying the link between metabolic changes driven by the differentiation into mature adipocytes of a human preadipocyte cell line (SGBS) and their regulation, through a combined experimental and computational approach. By collecting data on gene expression, PPARg, CEBPa, LX...
ORGANISM(S): Homo sapiens 
2013-11-19 | E-GEOD-41629 | biostudies-arrayexpress
TranscriptomicsPhenotypic differences in dopaminergic circuitries of mouse strains are associated with extensive regulatory variation in the midbrain
The nigrostriatal circuitry in the substantia nigra (SN) exerts control over the motor system and the loss of dopaminergic neurons (DAns) in the SN is the primary cause of Parkinson’s disease (PD). We have performed RNA-seq, ChIP-seq, and ATAC-seq analysis of the ventral midbrains of three widely us...
ORGANISM(S): Mus musculus 
2019-10-07 | E-MTAB-8333 | biostudies-arrayexpress
TranscriptomicsTemporal enhancer profiling of parallel lineages identifies AHR and GLIS1 as regulators of mesenchymal multipotency
Temporal data on gene expression and context-specific open chromatin states can improve identification of key transcription factors (TFs) and the gene regulatory networks (GRNs) controlling cellular differentiation. However, their integration remains challenging. Here, we delineate a general approac...
ORGANISM(S): Mus musculus 
2019-02-07 | E-MTAB-6840 | biostudies-arrayexpress
GenomicsIntegrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network
The reconstruction of cell type- and patient-specific metabolic models from easily and reliably measurable features such as transcriptomics data will be increasingly important at the age of personalized medicine. Current reconstruction methods suffer from high computational effort and arbitrary thre...
ORGANISM(S): Homo sapiens 
2015-09-01 | E-GEOD-68798 | biostudies-arrayexpress
Transcriptomics2-hydroxyglutarate modulates histone methylation using both RNA/ChIP-seq
2-hydroxyglutarate (2-HG) is an oncometabolite accumulating in certain cancers and some neurometabolic diseases. In cancers 2-HG accumulation is induced by a gain-of-function mutation in isocitrate dehydrogenase (IDH) genes, leading to conversion of alpha-ketoglutarate (a-KG) into 2-HG
ORGANISM(S): Saccharomyces cerevisiae S288C 
2023-04-15 | E-MTAB-11328 | biostudies-arrayexpress
GenomicsDLSM Epigenetics DAC
Data Access Committee EGAC00001002822
EGAC00001002822 | EGA
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