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Effect of CWG-cPIP on CAG/CTG triplet repeat mouse brain

ABSTRACT: Effect of CWG-cPIP on CAG/CTG triplet repeat mouse brain

PROVIDER: PRJNA867693 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR20992963_1.fastq.gz	Fastqsanger.gz
	SRR20992963_2.fastq.gz	Fastqsanger.gz
	SRR20992964_1.fastq.gz	Fastqsanger.gz
	SRR20992964_2.fastq.gz	Fastqsanger.gz
	SRR20992965_1.fastq.gz	Fastqsanger.gz

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Off-target effect of CWG-cPIP on gene expression of human fibroblasts

Project description:CWG-cPIP targets CAG/CTG (CWG) triplet repeat DNA to inhibit the transcription in a repeat length-dependent manner. To investigate off-target effects of CWG-cPIP on gene expression in cells, CWG-cPIP (1 μM) was treated to human fibroblasts. RNA sequencing analysis was performed using vehicle- or CWG-cPIP-treated human fibroblasts 7 days later, mixing with ERCC RNA spike-in controls.

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Off-target effect of CWG-cPIP on gene expression of mouse Striatum

Project description:CWG-cPIP targets CAG/CTG (CWG) triplet repeat DNA to inhibit the transcription in a repeat length-dependent manner. To investigate off-target effects of CWG-cPIP on gene expression in the brain, CWG-cPIP (664 ug/kg) was intracerebroventricularly injected into mouse. RNA sequencing analysis was performed using vehicle- or CWG-cPIP-injected mouse striatum 3 weeks later, mixing with ERCC RNA spike-in controls.

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Off-target effect of CWG-cPIP on gene expression of mouse hippocampus

Project description:CWG-cPIP targets CAG/CTG (CWG) triplet repeat DNA to inhibit the transcription in a repeat length-dependent manner. To investigate off-target effects of CWG-cPIP on gene expression in the brain, CWG-cPIP (83 ug/kg) was injected into mouse hippocampus. RNA sequencing analysis was performed using vehicle- or CWG-cPIP-injected mouse hippocampus 3 weeks later, mixing with ERCC RNA spike-in controls.

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Effect of CWG-cPIP on transcriptome defects in CUG mouse brain

Project description:CWG-cPIP targets CAG/CTG (CWG) triplet repeat DNA to inhibit the transcription in a repeat length-dependent manner. To investigate effects of CWG-cPIP on transcriptome defects in the brain of CUG300 mice, which we developed as a model of DM1, CWG-cPIP (83 ug/kg) was injected into mouse hippocampus. RNA sequencing analysis was performed using mouse hippocampus 10 days later.

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Effect of CWG-cPIP on alternative splicing defects in CUG mouse brain

Project description:CWG-cPIP targets CAG/CTG (CWG) triplet repeat DNA to inhibit the transcription in a repeat length-dependent manner. To investigate effects of CWG-cPIP on alternative splicing defects in the brain of CUG300 mice, which we developed as a model of DM1, CWG-cPIP (83 ug/kg) was injected into mouse hippocampus. RNA sequencing analysis was performed using mouse hippocampus 10 days later.

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Effect of CWG-cPIP on CAG/CTG triplet repeat mouse brain

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

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Three-dimensional chromatin interactions remain stable upon CAG/CTG repeat expansion

Project description:Expanded CAG/CTG repeats underlie thirteen neurological disorders, including myotonic dystrophy type 1 (DM1) and Huntington’s disease (HD). Upon expansion, CAG/CTG repeat loci acquire heterochromatic characteristics. This observation raises the hypothesis that repeat expansion provokes changes to higher-order chromatin conformation and thereby affects both gene expression in cis and the genetic instability of the repeat tract. Here we tested this hypothesis directly by performing 4C sequencing at the DMPK and HTT loci from DM1 and HD patient-derived cells. Surprisingly, chromatin contacts remain unchanged upon repeat expansion at both loci. This was true for expanded alleles with different DNA methylation levels and CTCF binding. Repeat tract sizes ranging from 15 to 1,700 repeats displayed strikingly similar chromatin interaction profiles. Moreover, the ectopic insertion of an expanded CAG repeat tract did not change the three-dimensional chromatin conformation of the surrounding genomic region. Our findings argue that extensive changes in heterochromatic properties are not enough to alter chromatin conformation at expanded CAG/CTG repeat loci. We conclude that 3D chromatin conformation is unlikely to drive repeat expansions or changes in gene expression in expanded CAG/CTG repeat disorders. This SuperSeries is composed of the SubSeries listed below.

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Effect of CWG-cPIP on transcriptome defects in CUG mouse brain

Project description:Effect of CWG-cPIP on transcriptome defects in CUG mouse brain

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Effect of CWG-cPIP on alternative splicing defects in CUG mouse brain

Project description:Effect of CWG-cPIP on alternative splicing defects in CUG mouse brain

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