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Mus musculus

ABSTRACT: Single cell RNA-Seq of Hira-KO and control MII oocytes [Gdf9-Cre+]

PROVIDER: PRJNA278394 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1916561_1.fastq.gz	Fastqsanger.gz
	SRR1916561_2.fastq.gz	Fastqsanger.gz
	SRR1916562_1.fastq.gz	Fastqsanger.gz
	SRR1916562_2.fastq.gz	Fastqsanger.gz
	SRR1916563_1.fastq.gz	Fastqsanger.gz

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Mus musculus

Project description:Single cell RNA-Seq of Hira-KO and control MII oocytes [Zp3-Cre]

| PRJNA296829 | ENA

Single cell RNA-Seq of Hira-KO and control MII oocytes [Gdf9-Cre+]

Project description:The integrity of chromatin, which provides a dynamic template for all DNA related processes in eukaryotes, is maintained through replication dependent and independent assembly pathways. To address the role of replication independent histone deposition, we deleted the histone H3.3 chaperone Hira in developing mouse oocytes. We show that chromatin of non-replicative developing oocytes is highly dynamic, and that lack of continuous H3.3/H4 deposition alters chromatin structure, resulting in increased DNase I sensitivity, the accumulation of DNA damage, and, ultimately, a severe fertility phenotype. On the molecular level, abnormal chromatin structure leads to a dramatic decrease in the dynamic range of gene expression, the appearance of spurious transcripts, and inefficient de novo DNA methylation. In contrast to the only minor transcriptional phenotype observed in mouse pluripotent cells, we unequivocally show the importance of histone replacement and chromatin homeostasis for transcriptional regulation and normal developmental progression in an in vivo context. RNA-Seq on 4 Hiraf/f and 4 Hiraf/f, Gdf9-Cre+ single MII oocytes

2015-11-03 | E-GEOD-66931 | biostudies-arrayexpress

Single cell RNA-Seq of Hira-KO and control MII oocytes

Project description:Single cell RNA-Seq of Hira-KO and control MII oocytes

| PRJNA296825 | ENA

Single cell RNA-Seq of Hira-KO and control MII oocytes [Zp3-Cre]

Project description:The integrity of chromatin, which provides a dynamic template for all DNA-related processes in eukaryotes, is maintained through replication-dependent and -independent assembly pathways. To address the role of replication-independent histone deposition, we deleted the histone H3.3 chaperone Hira in developing mouse oocytes. We show that chromatin of non-replicative developing oocytes is highly dynamic, and that lack of continuous H3.3/H4 deposition alters chromatin structure, resulting in increased DNase I sensitivity, the accumulation of DNA damage, and, ultimately, a severe fertility phenotype. On the molecular level, abnormal chromatin structure leads to a dramatic decrease in the dynamic range of gene expression, the appearance of spurious transcripts, and inefficient de novo DNA methylation. In contrast to the only minor transcriptional phenotype observed in mouse pluripotent cells, we unequivocally show the importance of histone replacement and chromatin homeostasis for transcriptional regulation and normal developmental progression in an in vivo context. RNA-Seq on 4 Hiraf/f and 4 Hiraf/f, Zp3-Cre single MII oocytes.

2015-11-03 | E-GEOD-73381 | biostudies-arrayexpress

Maternal transcription factor TCF12 mediates fertilization and zygotic genome activation during early embryonic development

Project description:To investigate the physiological function of TCF12 in oocyte maturation and preimplantational development, we crossed Tcf12fl/fl mice with Gdf9-Cre mice to specifically delete Tcf12 from the primordial follicle stage. We then performed gene expression profiling analysis using data obtained from RNA-seq on Tcf12fl/fl and Tcf12fl/fl;Gdf9-Cre growing GV oocytes (gGO), fully grown GV oocytes (fGO), embryos at 2-cell and 4-cell stage.

2022-08-17 | GSE211286 | GEO

Shotgun proteomics of mouse oocytes

Project description:Shotgun mass spectrometric analysis of Cre control and CNOT7&8 KO GV oocytes

2023-09-28 | PXD039816 | JPOST Repository

Comparing the Transcriptomes of Wild Type and Zp3-Cre mediated Mtor-Oocyte-Conditional Knockout (CKO) Mouse Metaphase II oocytes by RNA-Seq Analysis

Project description:The goal of this study is to identify the differentially expressed genes in Zp3-Cre mediated Mtor oocyte-specific knockout (CKO) Metaphase II (MII) oocytes by comparing the transcriptomes of Wild-Type (WT) and CKO Mouse MII oocytes via RNA-Seq Analysis. Methods: mRNA profiles of 3 sets of super-ovulated MII oocytes collected from 24-day old WT- and Mtor CKO female mice were generated by deep sequencing using an Illumina Hiseq2500 platform with 41bp single read. All RNA-seq reads passed filter were trimmed to remove low-quality bases and adaptor sequences. Reads then were aligned to the mm10 reference genome using tophat2 (v2.0.8b). Reads aligned to genes are counted by cufflinks (v2.1.1). The FPKMs are normalized usingcuffnorm. Differentially expressed genes are calculated using cuffdiff.

2021-05-01 | GSE98548 | GEO

BAF250a Gdf9-cre knockout mice GV and MII stage oocyte transcriptome compared with control mice.

Project description:BAF250a Gdf9-cre knockout mice GV and MII stage oocyte transcriptome compared with control mice.

| PRJNA604505 | ENA

Chromatin assembly factor HIRA is essential for the maintenance of hematopoiesis

Project description:HIRA is a histone chaperone that deposits the histone variant H3.3 in transcriptionally active genes. HIRA is essential for mouse development, as the standard knockout (KO) results in early embryonic death. However, the role of HIRA in hematopoiesis is poorly understood. We investigated the effect of Hira KO on hematopoiesis using Vav-Cre Loxp system. We show that Hira KO dramatically reduces bone marrow LSK cells, resulting in anemia, thrombopenia and severe, combined immunodeficiency. To investigate the molecular mechanisms, RNA-seq and ATAC-Seq were performed using LSK cells isolated from WT and Hira conditional KO mice.

2020-06-30 | GSE125154 | GEO

Dissecting PADI6 function defines oocyte cytoplasmic lattices as regulatory hubs for fundamental cellular processes

Project description:Transcriptome profiling of MII oocytes, zygote and 2-cell embryos (processed as individual blastomeres) from wild-type females, females with a single point mutation in Padi6 resulting in the amino acid substitution C663A (Padi6-C663A), and females with a Padi6 null mutation (Padi6-KO).

2025-02-23 | GSE289965 | GEO

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