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Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene [WGS]

ABSTRACT: Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene [WGS]

PROVIDER: PRJNA1049791 | ENA |

REPOSITORIES: ENA

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Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene

Project description:Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene

| PRJNA1049797 | ENA

Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene [WGS]

Project description:Maintaining genome integrity is crucial for the proper functioning and development of organisms. One intriguing aspect of genome integrity is the formation and function of neocentromeres at non-centromeric sites. The centromere-specific protein CENP-A plays a vital role in centromere identification and function. However, in many cancers, CENP-A is often found to be ectopically misplaced when overexpressed. Moreover, the deposition of CENP-A at the centromere depends on the transcription of centromeric non-coding RNAs. Consequently, ectopic CENP-A is found at transcriptionally active and frequent breakpoint regions. To further explore the ectopic CENP-A localization, we engineered a stable ectopic CENP-A site at a naïve chromosome by overexpressing a non-centromeric oncogenic lncRNA capable of recruiting CENP-A to its transcription site. We tracked cells carrying the stable transgene to understand the stability and longevity of the induced ectopic CENP-A site and the harboring chromosome. Our findings revealed that the induced epigenetic memory was eventually lost by suppression of the transgene through competing epigenetic silencing mechanisms. This epigenetic restoration naturally reversed the ectopic CENP-A level to its previous levels at the engineered site. Our observations suggest that cells may have evolved failsafe mechanisms to prevent neocentromere formation at ectopic sites unless otherwise favored by selection involving multiple components.

2025-06-23 | GSE249599 | GEO

Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene [Bisulfite-Seq]

Project description:Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene [Bisulfite-Seq]

| PRJNA1049799 | ENA

Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene [Bisulfite-Seq]

2025-06-23 | GSE249602 | GEO

Epigenetic enigma: reinstating normalcy at a naïve chromosomal locus by suppressing an oncogenic lncRNA transgene

Project description:This SuperSeries is composed of the SubSeries listed below.

2025-06-23 | GSE249606 | GEO

Enigma WTTS strains

Project description:Enigma WTTS strains

| PRJEB20152 | ENA

Todiramphus enigma strain:NA

Project description:Todiramphus enigma

| PRJNA969415 | ENA

RNAi knock down of Enigma, a mitochondrial protein with homology to acyl-CoA dehydrogenases, in Drosophila

Project description:5 day RNAi treatment to knockdown Enigma, CG9006, a Drosophila mitochondrial protein with homology to acyl-CoA dehydrogenases. Experiment Overall Design: Kc-167 cells, 5 day treatment with Enigma-specific RNAi or beta-lactamase control RNAi. Specifics:1.6X10^6 cells in 0.5mL of serum-free Sang's M3 media incubated for 1 hour with 20ug of dsRNA, subsequently equal volume of M3 media containing 10% serum was added. Cells harvested after 5 days. RNAi efficiency measured by immunoblot for Enigma.

2007-07-31 | E-GEOD-3566 | biostudies-arrayexpress

Enigma (CG9006) RNAi vs control RNAi in Drosophila Kc-167 cells.

Project description:5 day RNAi treatment to knockdown Enigma, CG9006, a Drosophila mitochondrial protein with homology to acyl-CoA dehydrogenases. Keywords: Genetic modification

2006-02-04 | GSE3566 | GEO

Allele-specific chromosome conformations induced by a transgene- and locus-dependent imprinting

Project description:A reporter transgene displayed parental imprinting in mouse embryos when positioned into the Itga6 gene. The strong lacZ pattern of expression scored in embryos inheriting the transgene from a male was not present when transmitted from a female. The transgene exhibited maternal allele-specific DNA hyper-methylation acquired in the germ-line and histone modifications corresponded to profiles described at known imprinted loci. Chromosome conformation analyzes revealed distinct, parent-of-origin interaction domains, with a more compact structure characterizing the maternally inherited repressed allele. The analysis of such transgene insertions with a selective potential to induce imprinting may help understanding the mechanisms identifying particular loci as targets for allele-specific repression.

2013-07-03 | GSE48148 | GEO

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