Please note that we have stopped the regular imports of Gene Expression Omnibus (GEO) data into ArrayExpress. This may not be the latest version of this experiment.
E-GEOD-62031 - The DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation 
Released on 3 December 2014, last updated on 2 January 2015
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent roles of Dali, a conserved central nervous system expressed intergenic lncRNA. Dali is transcribed downstream of the Pou3f3 transcription factor gene and its depletion disrupts the differentiation of neuroblastoma cells. Locally, Dali transcript regulates transcription of the Pou3f3 locus. Distally, it preferentially targets active promoters and regulates expression of neural differentiation genes, in part through physical association with the POU3F3 protein. Dali interacts with the DNMT1 DNA methyltransferase in mouse and human and regulates DNA methylation status of CpG island-associated promoters in trans. These results demonstrate, for the first time, that a single intergenic lncRNA controls the activity and methylation of genomically distal regulatory elements to modulate large-scale transcriptional programmes. N2A cells transfected with a non-targeting control vector were compared to N2A cells transfected with a Dali knockdown construct. Three biological replicates of each condition were analysed on Affymetrix GeneChip Mouse Gene 1.0 ST Arrays.
transcription profiling by array
Vladislava Chalei <Vladislava.Chalei@gmail.com>, Chris P Ponting, Juan Montiel, Keith W Vance, Lesheng Kong, Sheena Lee, Stephen N Sansom
The long non-coding RNA <i>Dali</i> is an epigenetic regulator of neural differentiation. Chalei V, Sansom SN, Kong L, Lee S, Montiel J, Vance KW, Ponting CP. , PMID:25415054