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STARR-seq in 1.8 XX and XO mESCs during differentiation

ABSTRACT: STARR-seq in 1.8 XX and XO mESCs during differentiation

PROVIDER: PRJNA704377 | ENA |

REPOSITORIES: ENA

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STARR-seq in 1.8 XX and XO mESCs during differentiation

Project description:Developmental genes are controlled by complex cis-regulatory landscapes that integrate multiple signals to ensure the correct spatio-temporal expression pattern. To investigate the underlying regulatory principles, we use the Xist locus as a model, which encodes the master regulator of X-chromosome inactivation. Xist is upregulated at the primed pluripotent state in a female-specific manner, thus integrating developmental cues and X-dosage information. It remains poorly understood how these signals are decoded by the ~800kb genomic region that controls Xist. While a series of repressive cis-regulatory elements have been identified, the distal enhancers that activate Xist transcription remain largely unknown. Here we use STARR-seq to profile enhancer activity within the X inactivation center at the onset of random X-chromosome inactivation.

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Expression profiles of (40,XX) and (39,XO) females

Project description:Gobal expression analysis in four somatic tissues (brain, liver, kidney and muscle) of adult 40,XX and 39,XO mice with the aim of identifying which genes are expressed from both X chromosomes as well as those genes deregulated in X chromosome monosomy. Keywords: Expression profiling by array For each tissue, the RNA samples of seven 40,XX, eight 39,XpO and eight 39,XmO mice were pooled by genotype into 9 groups, representing 3 biological replicates per genotype, as follows: 39,XpO-1 and 39,XpO-2 (3 pooled individuals each), 39,XpO-3 (2 pooled individuals); 39,XmO-1 and 39,XmO-2 (3 pooled individuals each), 39,XmO-3 (2 pooled individuals); 40,XX-1 and 40,XX-2 (3 pooled individuals each) 40,XX-3 (2 pooled individuals)

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RNA sequencing of 1.8 female mouse embryonic stem cells (mESCs) and XO subclones.

Project description:RNA sequencing of 1.8 female mouse embryonic stem cells (mESCs) and XO subclones.

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Expression profiles of (40,XX) and (39,XO) females

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Project description:Purpose: To understand how sex chromosome complement, XX, XO and XY, influences the transcriptome in the oocytes of grwoth phase. Methods: Oocytes of 50 and 60 µm in diameter were isolated from mouse ovaries at 18 dpp and subject to RNA-sequencing. Results: (1) Many X-linked genes are subject to X chromosome dosage dependent expression. (2) Many genes are expressed from both short and long arms of the Y chromosome. (3) The transcriptome landscape in XY oocytes is closer to XX oocytes than XO oocytes. (4) About 10 genes are differentially expressed in XY oocytes compared to XX or XO oocytes. Conclusions: The differences in XY oocytes became exacerbated to differ from XX or XO oocytes near the end of growth phase.

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RNA-seq in TX1072 XO mESCs during differentiation

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RNA seq comparative analysis of XX, XY, and XXTet3-/- mutant mouse embryonic stem cells versus XX, XY, and XXTet3-/- mutant epiblast-like cells

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